PDB_ID PUBMED_CID STRUCTURE TITLE DEPOSITION DATE RELEASE DATE AUTHORS CITATION TITLE JOURNAL YEAR VOLUME FIRST PAGE LAST PAGE 1UIR 21458463 Crystal Structure of Polyamine Aminopropyltransfease from Thermus thermophilus 2003-07-18 2003-08-05 Ohnuma, M.,Ganbe, T.,Terui, Y.,Niitsu, M.,Sato, T.,Tanaka, N.,Tamakoshi, M.,Samejima, K.,Kumasaka, T.,Oshima, T. Crystal structures and enzymatic properties of a triamine/agmatine aminopropyltransferase from Thermus thermophilus J.Mol.Biol. 2011 408 971 986 1ULV 14660574 Crystal Structure of Glucodextranase Complexed with Acarbose 2003-09-16 2003-12-09 Mizuno, M.,Tonozuka, T.,Suzuki, S.,Uotsu-Tomita, R.,Kamitori, S.,Nishikawa, A.,Sakano, Y. Structural insights into substrate specificity and function of glucodextranase J.Biol.Chem. 2004 279 10575 10583 1V7Z 15003455 creatininase-product complex 2003-12-26 2004-01-27 Yoshimoto, T.,Tanaka, N.,Kanada, N.,Inoue, T.,Nakajima, Y.,Haratake, M.,Nakamura, K.T.,Xu, Y.,Ito, K. 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One-metal activation and second-metal attenuation 2003-11-20 2004-04-20 Lai, W.L.,Chou, L.Y.,Ting, C.Y.,Kirby, R.,Tsai, Y.C.,Wang, A.H.,Liaw, S.H. The Functional Role of the Binuclear Metal Center in D-Aminoacylase: ONE-METAL ACTIVATION AND SECOND-METAL ATTENUATION. J.Biol.Chem. 2004 279 13962 13967 1UJJ 15117318 VHS domain of human GGA1 complexed with C-terminal peptide from BACE 2003-08-05 2004-05-11 Shiba, T.,Kametaka, S.,Kawasaki, M.,Shibata, M.,Waguri, S.,Uchiyama, Y.,Wakatsuki, S. Insights into the Phosphoregulation of beta-Secretase Sorting Signal by the VHS Domain of GGA1 TRAFFIC 2004 5 437 448 1V9F 15078091 Crystal structure of catalytic domain of pseudouridine synthase RluD from Escherichia coli 2004-01-26 2004-05-18 Mizutani, K.,Machida, Y.,Unzai, S.,Park, S.-Y.,Tame, J.R.H. Crystal structures of the catalytic domains of pseudouridine synthases RluC and RluD from Escherichia coli Biochemistry 2004 43 4454 4463 1V9K 15078091 The crystal structure of the catalytic domain of pseudouridine synthase RluC from Escherichia coli 2004-01-26 2004-05-18 Mizutani, K.,Machida, Y.,Unzai, S.,Park, S.-Y.,Tame, J.R.H. Crystal structures of the catalytic domains of pseudouridine synthases RluC and RluD from Escherichia coli Biochemistry 2004 43 4454 4463 1V82 14993226 Crystal structure of human GlcAT-P apo form 2003-12-27 2004-05-25 Kakuda, S.,Shiba, T.,Ishiguro, M.,Tagawa, H.,Oka, S.,Kajihara, Y.,Kawasaki, T.,Wakatsuki, S.,Kato, R. Structural Basis for Acceptor Substrate Recognition of a Human Glucuronyltransferase, GlcAT-P, an Enzyme Critical in the Biosynthesis of the Carbohydrate Epitope HNK-1 J.Biol.Chem. 2004 279 22693 22703 1V83 14993226 Crystal structure of human GlcAT-P in complex with Udp and Mn2+ 2003-12-27 2004-05-25 Kakuda, S.,Shiba, T.,Ishiguro, M.,Tagawa, H.,Oka, S.,Kajihara, Y.,Kawasaki, T.,Wakatsuki, S.,Kato, R. Structural Basis for Acceptor Substrate Recognition of a Human Glucuronyltransferase, GlcAT-P, an Enzyme Critical in the Biosynthesis of the Carbohydrate Epitope HNK-1 J.Biol.Chem. 2004 279 22693 22703 1V84 14993226 Crystal structure of human GlcAT-P in complex with N-acetyllactosamine, Udp, and Mn2+ 2003-12-27 2004-05-25 Kakuda, S.,Shiba, T.,Ishiguro, M.,Tagawa, H.,Oka, S.,Kajihara, Y.,Kawasaki, T.,Wakatsuki, S.,Kato, R. 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Febs Lett. 2005 579 5385 5391 2D2F 16216272 Crystal structure of atypical cytoplasmic ABC-ATPase SufC from Thermus thermophilus HB8 2005-09-08 2005-10-25 Watanabe, S.,Kita, A.,Miki, K. Crystal Structure of Atypical Cytoplasmic ABC-ATPase SufC from Thermus thermophilus HB8. J.Mol.Biol. 2005 353 1043 1054 1WTC 19640845 Crystal Structure of S.pombe Serine Racemase complex with AMPPCP 2004-11-22 2005-11-01 Goto, M.,Yamauchi, T.,Kamiya, N.,Miyahara, I.,Yoshimura, T.,Mihara, H.,Kurihara, T.,Hirotsu, K.,Esaki, N. Crystal structure of a homolog of mammalian serine racemase from Schizosaccharomyces pombe J.Biol.Chem. 2009 284 25944 25952 1ZPW Crystal structure of a hypothetical protein TT1823 from Thermus thermophilus 2005-05-18 2005-11-18 Ihsanawati,Murayama, K.,Shirouzu, M.,Yokoyama, S. Crystal structure of a hypothetical protein TT1823 from Thermus thermophilus To be Published 0 0 0 0 2B3Z Crystal structure of a bifunctional deaminase and reductase involved in riboflavin biosynthesis 2005-09-22 2005-11-29 Chen, S.J.,Chang, Y.C.,Liaw, S.H. Crystal structure of a bifunctional deaminase and reductase involved in riboflavin biosynthesis To be Published 0 0 0 0 1WRJ Crystal structure of O6-methylguanine methyltransferase from Sulfolobus tokodaii 2004-10-18 2005-12-06 Kuroda, M.,Tsunoda, M.,Nakamura, K.T. Crystal structure of O6-methylguanine methyltransferase from Sulfolobus tokodaii To be Published 0 0 0 0 1WY7 16245322 crystal structure of a putative RNA methyltransferase PH1948 from Pyrococcus horikoshii 2005-02-08 2005-12-13 Gao, Y.G.,Yao, M.,Yong, Z.,Tanaka, I. Crystal structure of the putative RNA methyltransferase PH1948 from Pyrococcus horikoshii, in complex with the copurified S-adenosyl-L-homocysteine Proteins 2005 61 1141 1145 2BTL 16338414 Crystal structure of the N-terminal domain of IBV coronavirus nucleocapsid 2005-06-03 2005-12-14 Fan, H.,Ooi, A.,Tan, Y.W.,Wang, S.,Fang, S.,Liu, D.-X.,Lescar, J. The Nucleocapsid Protein of Coronavirus Infectious Bronchitis Virus: Crystal Structure of its N-Terminal Domain and Multimerization Properties. Structure 2005 13 1859 0 2D3G 16462748 Double sided ubiquitin binding of Hrs-UIM 2005-09-28 2005-12-20 Hirano, S.,Kawasaki, M.,Ura, H.,Kato, R.,Raiborg, C.,Stenmark, H.,Wakatsuki, S. Double-sided ubiquitin binding of Hrs-UIM in endosomal protein sorting Nat.Struct.Mol.Biol. 2006 13 272 277 2CXA 17242373 Crystal structure of Leucyl/phenylalanyl-tRNA protein transferase from Escherichia coli 2005-06-28 2005-12-28 Dong, X.,Kato-Murayama, M.,Muramatsu, T.,Mori, H.,Shirouzu, M.,Bessho, Y.,Yokoyama, S. The crystal structure of leucyl/phenylalanyl-tRNA-protein transferase from Escherichia coli Protein Sci. 2007 16 528 534 2CXH Crystal structure of probable ribosomal biogenesis protein from Aeropyrum pernix K1 2005-06-29 2005-12-29 Kawazoe, M.,Takemoto, C.,Hanawa-Suetsugu, K.,Kaminishi, T.,Terada, T.,Shirouzu, M.,Yokoyama, S. Crystal structure of probable ribosomal biogenesis protein from Aeropyrum pernix K1 To be Published 0 0 0 0 2B9L 16362048 Crystal structure of prophenoloxidase activating factor-II from the beetle Holotrichia diomphalia 2005-10-12 2006-01-03 Piao, S.,Song, Y.L.,Kim, J.H.,Park, S.Y.,Park, J.W.,Lee, B.L.,Oh, B.H.,Ha, N.C. Crystal structure of a clip-domain serine protease and functional roles of the clip domains. Embo J. 2005 24 4404 4414 2CY2 Crystal structure of TTHA1209 in complex with acetyl coenzyme A 2005-07-04 2006-01-04 Kaminishi, T.,Takemoto, C.,Uchikubo-Kamo, T.,Terada, T.,Shirouzu, M.,Yokoyama, S. Crystal structure of TTHA1209 in complex with acetyl coenzyme A To be Published 0 0 0 0 2D42 16400649 Crystal structure analysis of a non-toxic crystal protein from Bacillus thuringiensis 2005-10-05 2006-01-17 Akiba, T.,Higuchi, K.,Mizuki, E.,Ekino, K.,Shin, T.,Ohba, M.,Kanai, R.,Harata, K. Nontoxic crystal protein from Bacillus thuringiensis demonstrates a remarkable structural similarity to beta-pore-forming toxins Proteins 2006 63 243 248 2D42 16400649 Crystal structure analysis of a non-toxic crystal protein from Bacillus thuringiensis 2005-10-05 2006-01-17 Akiba, T.,Higuchi, K.,Mizuki, E.,Ekino, K.,Shin, T.,Ohba, M.,Kanai, R.,Harata, K. Nontoxic crystal protein from Bacillus thuringiensis demonstrates a remarkable structural similarity to beta-pore-forming toxins Proteins 2006 63 243 248 2FJ8 High resolution structure of barley Bowman-Birk inhibitor 2006-01-02 2006-01-17 Song, H.K. High resolution structure of barley Bowman-Birk inhibitor To be Published 0 0 0 0 2A6Y 16439369 Crystal structure of Emp47p carbohydrate recognition domain (CRD), tetragonal crystal form 2005-07-04 2006-01-31 Satoh, T.,Sato, K.,Kanoh, A.,Yamashita, K.,Yamada, Y.,Igarashi, N.,Kato, R.,Nakano, A.,Wakatsuki, S. Structures of the carbohydrate recognition domain of Ca2+-independent cargo receptors Emp46p and Emp47p. J.Biol.Chem. 2006 281 10410 10419 2DCZ 16467302 Thermal Stabilization of Bacillus subtilis Family-11 Xylanase By Directed Evolution 2006-01-18 2006-02-07 Miyazaki, K.,Takenouchi, M.,Kondo, H.,Noro, N.,Suzuki, M.,Tsuda, S. Thermal Stabilization of Bacillus subtilis Family-11 Xylanase by Directed Evolution J.Biol.Chem. 2006 281 10236 10242 1Y37 Structure of Fluoroacetate Dehalogenase from Burkholderia sp. FA1 2004-11-23 2006-02-28 Omi, R.,Jitsumori, K.,Kurihara, T.,Esaki, N.,Goto, M.,Miyahara, I.,Hirotsu, K. Crystal Structure of Fluoroacetate Dehalogenase FA1 To be Published 0 0 0 0 2D5X 16403522 Crystal structure of carbonmonoxy horse hemoglobin complexed with L35 2005-11-08 2006-03-07 Yokoyama, T.,Neya, S.,Tsuneshige, A.,Yonetani, T.,Park, S.Y.,Tame, J.R. R-state haemoglobin with low oxygen affinity: crystal structures of deoxy human and carbonmonoxy horse haemoglobin bound to the effector molecule L35 J.Mol.Biol. 2006 356 790 801 1WZE Structural basis for alteration of cofactor specificity of Malate dehydrogenase from Thermus flavus 2005-03-04 2006-03-14 Tomita, T.,Fushinobu, S.,Kuzuyama, T.,Nishiyama, M. Structural basis for alteration of cofactor specificity of malate dehydrogenase from Thermus flavus to be published 0 0 0 0 2AXC 16360169 Crystal structure of ColE7 translocation domain 2005-09-04 2006-03-14 Cheng, Y.S.,Shi, Z.,Doudeva, L.G.,Yang, W.Z.,Chak, K.F.,Yuan, H.S. High-resolution crystal structure of a truncated ColE7 translocation domain: implications for colicin transport across membranes J.Mol.Biol. 2006 356 22 31 2D3N 16452622 Crystal structure of maltohexaose-producing amylase from Bacillus sp.707 complexed with maltohexaose 2005-09-29 2006-03-14 Kanai, R.,Haga, K.,Akiba, T.,Yamane, K.,Harata, K. Role of Trp140 at subsite -6 on the maltohexaose production of maltohexaose-producing amylase from alkalophilic Bacillus sp.707 Protein Sci. 2006 15 468 477 2DDH 16672280 Crystal Structure of Acyl-CoA oxidase complexed with 3-OH-dodecanoate 2006-01-29 2006-03-28 Tokuoka, K.,Nakajima, Y.,Hirotsu, K.,Miyahara, I.,Nishina, Y.,Shiga, K.,Tamaoki, H.,Setoyama, C.,Tojo, H.,Miura, R. Three-Dimensional Structure of Rat-Liver Acyl-CoA Oxidase in Complex with a Fatty Acid: Insights into Substrate-Recognition and Reactivity toward Molecular Oxygen. J.Biochem.(Tokyo) 2006 139 789 795 2DEX 16567635 Crystal structure of human peptidylarginine deiminase 4 in complex with histone H3 N-terminal peptide including Arg17 2006-02-18 2006-04-11 Arita, K.,Shimizu, T.,Hashimoto, H.,Hidaka, Y.,Yamada, M.,Sato, M. Structural basis for histone N-terminal recognition by human peptidylarginine deiminase 4 Proc.Natl.Acad.Sci.Usa 2006 103 5291 5296 1X1N Structure determination and refinement at 1.8 A resolution of Disproportionating Enzyme from Potato 2005-04-08 2006-04-18 Imamura, K.,Matsuura, T.,Takaha, T.,Fujii, K.,Nakagawa, A.,Kusunoki, M.,Nitta, Y. Structure determination and refinement at 1.8 A resolution of Disproportionating Enzyme from Potato to be published 0 0 0 0 2CQT 16646954 Crystal Structure of Cellvibrio gilvus Cellobiose Phosphorylase Crystallized from Sodium/Potassium Phosphate 2005-05-20 2006-05-16 Hidaka, M.,Kitaoka, M.,Hayashi, K.,Wakagi, T.,Shoun, H.,Fushinobu, S. Structural dissection of the reaction mechanism of cellobiose phosphorylase. Biochem.J. 2006 398 37 43 2GJL 16682407 Crystal Structure of 2-nitropropane dioxygenase 2006-03-31 2006-05-16 Ha, J.Y.,Min, J.Y.,Lee, S.K.,Kim, H.S.,Kim, J.,Kim, K.H.,Lee, H.H.,Kim, H.K.,Yoon, H.J.,Suh, S.W. Crystal Structure of 2-Nitropropane Dioxygenase Complexed with FMN and Substrate: identification of the catalytic base J.Biol.Chem. 2006 281 18660 18667 2GJN 16682407 crystal structure of 2-nitropropane dioxygenase complexed with FMN and substrate 2006-03-31 2006-05-16 Ha, J.Y.,Min, J.Y.,Lee, S.K.,Kim, H.S.,Kim, J.,Kim, K.H.,Lee, H.H.,Kim, H.K.,Yoon, H.J.,Suh, S.W. Crystal Structure of 2-Nitropropane Dioxygenase Complexed with FMN and Substrate: identification of the catalytic base J.Biol.Chem. 2006 281 18660 18667 2CVP 16375918 Crystal structure of mouse AMF 2005-06-10 2006-05-23 Tanaka, N.,Haga, A.,Naba, N.,Shiraiwa, K.,Kusakabe, Y.,Hashimoto, K.,Funasaka, T.,Nagase, H.,Raz, A.,Nakamura, K.T. Crystal structures of mouse autocrine motility factor in complex with carbohydrate phosphate inhibitors provide insight into structure-activity relationship of the inhibitors J.Mol.Biol. 2006 356 312 324 2CXT 16375918 Crystal structure of mouse AMF / F6P complex 2005-06-30 2006-05-23 Tanaka, N.,Haga, A.,Naba, N.,Shiraiwa, K.,Kusakabe, Y.,Hashimoto, K.,Funasaka, T.,Nagase, H.,Raz, A.,Nakamura, K.T. Crystal structures of mouse autocrine motility factor in complex with carbohydrate phosphate inhibitors provide insight into structure-activity relationship of the inhibitors J.Mol.Biol. 2006 356 312 324 1X0J Crystal structure analysis of the N-terminal bromodomain of human Brd2 2005-03-23 2006-06-27 Nakamura, Y.,Umehara, T.,Shirouzu, M.,Padmanabhan, B.,Yokoyama, S. Structural basis for acetylated histone H4 recognition by the human Brd2 bromodomain To be Published 0 0 0 0 2DF7 16677827 Crystal structure of infectious bursal disease virus VP2 subviral particle 2006-02-27 2006-06-27 Lee, C.C.,Ko, T.P.,Chou, C.C.,Yoshimura, M.,Doong, S.R.,Wang, M.Y.,Wang, A.H. Crystal structure of infectious bursal disease virus VP2 subviral particle at 2.6A resolution: Implications in virion assembly and immunogenicity. J.Struct.Biol. 2006 155 74 86 2DRO 19819900 Crystal structure of reducing-end-xylose releasing exo-oligoxylanase D263C mutant 2006-06-12 2006-06-27 Hidaka, M.,Fushinobu, S.,Honda, Y.,Wakagi, T.,Shoun, H.,Kitaoka, M. Structural explanation for the acquisition of glycosynthase activity J.Biochem. 2009 0 0 0 2DRR 19819900 Crystal structure of reducing-end-xylose releasing exo-oligoxylanase D263N mutant 2006-06-12 2006-06-27 Hidaka, M.,Fushinobu, S.,Honda, Y.,Wakagi, T.,Shoun, H.,Kitaoka, M. Structural explanation for the acquisition of glycosynthase activity J.Biochem. 2009 0 0 0 1WYD 17881821 Crystal Structure of Aspartyl-tRNA synthetase from Sulfolobus tokodaii 2005-02-12 2006-07-04 Sato, Y.,Maeda, Y.,Shimizu, S.,Hossain, M.T.,Ubukata, S.,Suzuki, K.,Sekiguchi, T.,Takenaka, A. Structure of the nondiscriminating aspartyl-tRNA synthetase from the crenarchaeon Sulfolobus tokodaii strain 7 reveals the recognition mechanism for two different tRNA anticodons ACTA CRYSTALLOGR.,SECT.D 2007 63 1042 1047 1WYE Crystal structure of 2-keto-3-deoxygluconate kinase (form 1) from Sulfolobus Tokodaii 2005-02-12 2006-07-04 Toyoda, T.,Suzuki, K.,Hossain, M.T.,Koike, I.,Sekiguchi, T.,Takenaka, A. Crystal structure of 2-keto-3-deoxygluconate kinase from Sulfolobus Tokodaii To be Published 0 0 0 0 2DQ7 16782058 Crystal Structure of Fyn kinase domain complexed with staurosporine 2006-05-23 2006-07-04 Kinoshita, T.,Matsubara, M.,Ishiguro, H.,Okita, K.,Tada, T. Structure of human Fyn kinase domain complexed with staurosporine. Biochem.Biophys.Res.Commun. 2006 346 840 844 2D0F 16302977 Crystal Structure of Thermoactinomyces vulgaris R-47 Alpha-Amylase 1 (TVAI) Mutant D356N complexed with P2, a pullulan model oligosaccharide 2005-08-02 2006-07-11 Abe, A.,Yoshida, H.,Tonozuka, T.,Sakano, Y.,Kamitori, S. Complexes of Thermoactinomyces vulgaris R-47 alpha-amylase 1 and pullulan model oligossacharides provide new insight into the mechanism for recognizing substrates with alpha-(1,6) glycosidic linkages Febs J. 2005 272 6145 6153 2DDQ 16603628 Crystal Structure of the Fab fragment of a R310 antibody complexed with (R)-HNE-histidine adduct 2006-02-02 2006-07-11 Akagawa, M.,Ito, S.,Toyoda, K.,Ishii, Y.,Tatsuda, E.,Shibata, T.,Yamaguchi, S.,Kawai, Y.,Ishino, K.,Kishi, Y.,Adachi, T.,Tsubata, T.,Takasaki, Y.,Hattori, N.,Matsuda, T.,Uchida, K. Bispecific abs against modified protein and DNA with oxidized lipids Proc.Natl.Acad.Sci.Usa 2006 103 6160 6165 2G5H 16809541 Structure of tRNA-Dependent Amidotransferase GatCAB 2006-02-23 2006-07-18 Nakamura, A.,Yao, M.,Chimnaronk, S.,Sakai, N.,Tanaka, I. Ammonia channel couples glutaminase with transamidase reactions in GatCAB Science 2006 312 1954 1958 2DQ6 16885166 Crystal Structure of Aminopeptidase N from Escherichia coli 2006-05-22 2006-08-01 Ito, K.,Nakajima, Y.,Onohara, Y.,Takeo, M.,Nakashima, K.,Matsubara, F.,Ito, T.,Yoshimoto, T. Aminopeptidase N (proteobacteria alanyl aminopeptidase) from Escherichia coli: Crystal structure and conformational change of the methionine 260 residue involved in substrate recognition J.Biol.Chem. 2006 281 33664 33676 2DQM 16885166 Crystal Structure of Aminopeptidase N complexed with bestatin 2006-05-29 2006-08-01 Ito, K.,Nakajima, Y.,Onohara, Y.,Takeo, M.,Nakashima, K.,Matsubara, F.,Ito, T.,Yoshimoto, T. Aminopeptidase N (proteobacteria alanyl aminopeptidase) from Escherichia coli: Crystal structure and conformational change of the methionine 260 residue involved in substrate recognition J.Biol.Chem. 2006 281 33664 33676 2DVT Crystal Structure of 2,6-Dihydroxybenzoate Decarboxylase from Rhizobium 2006-08-01 2006-09-19 Goto, M.,Hayashi, H.,Miyahara, I.,Hirotsu, K.,Yoshida, M.,Oikawa, T. Crystal Structures of Nonoxidative Zn-Dependent 2,6-Dihydroxybenzoate (gamma-Resorcylate) Decarboxylase from Rhizobium sp. Strain MTP-10005 To be Published 0 0 0 0 2D6L 16990264 Crystal structure of mouse galectin-9 N-terminal CRD (crystal form 2) 2005-11-14 2006-09-26 Nagae, M.,Nishi, N.,Murata, T.,Usui, T.,Nakamura, T.,Wakatsuki, S.,Kato, R. Crystal Structure of the Galectin-9 N-terminal Carbohydrate Recognition Domain from Mus musculus Reveals the Basic Mechanism of Carbohydrate Recognition J.Biol.Chem. 2006 281 35884 35893 2D7C 17030804 Crystal structure of human Rab11 in complex with FIP3 Rab-binding domain 2005-11-16 2006-09-26 Shiba, T.,Koga, H.,Shin, H.W.,Kawasaki, M.,Kato, R.,Nakayama, K.,Wakatsuki, S. Structural basis for Rab11-dependent membrane recruitment of a family of Rab11-interacting protein 3 (FIP3)/Arfophilin-1. Proc.Natl.Acad.Sci.Usa 2006 103 15416 15421 2D1Z 19279191 Crystal structure of catalytic-site mutant xylanase from Streptomyces olivaceoviridis E-86 2005-09-02 2006-10-10 Suzuki, R.,Fujimoto, Z.,Ito, S.,Kawahara, S.,Kaneko, S.,Taira, K.,Hasegawa, T.,Kuno, A. Crystallographic snapshots of an entire reaction cycle for a retaining xylanase from Streptomyces olivaceoviridis E-86 J.Biochem. 2009 146 61 70 2D20 19279191 Crystal structure of michaelis complex of catalytic-site mutant xylanase from Streptomyces olivaceoviridis E-86 2005-09-02 2006-10-10 Suzuki, R.,Fujimoto, Z.,Ito, S.,Kawahara, S.,Kaneko, S.,Taira, K.,Hasegawa, T.,Kuno, A. Crystallographic snapshots of an entire reaction cycle for a retaining xylanase from Streptomyces olivaceoviridis E-86 J.Biochem. 2009 146 61 70 2D22 19279191 Crystal structure of covalent glycosyl-enzyme intermediate of catalytic-site mutant xylanase from Streptomyces olivaceoviridis E-86 2005-09-02 2006-10-10 Suzuki, R.,Fujimoto, Z.,Ito, S.,Kawahara, S.,Kaneko, S.,Taira, K.,Hasegawa, T.,Kuno, A. Crystallographic snapshots of an entire reaction cycle for a retaining xylanase from Streptomyces olivaceoviridis E-86 J.Biochem. 2009 146 61 70 2D23 19279191 Crystal structure of EP complex of catalytic-site mutant xylanase from Streptomyces olivaceoviridis E-86 2005-09-02 2006-10-10 Suzuki, R.,Fujimoto, Z.,Ito, S.,Kawahara, S.,Kaneko, S.,Taira, K.,Hasegawa, T.,Kuno, A. Crystallographic snapshots of an entire reaction cycle for a retaining xylanase from Streptomyces olivaceoviridis E-86 J.Biochem. 2009 146 61 70 2D24 19279191 Crystal structure of ES complex of catalytic-site mutant xylanase from Streptomyces olivaceoviridis E-86 2005-09-02 2006-10-10 Suzuki, R.,Fujimoto, Z.,Ito, S.,Kawahara, S.,Kaneko, S.,Taira, K.,Hasegawa, T.,Kuno, A. Crystallographic snapshots of an entire reaction cycle for a retaining xylanase from Streptomyces olivaceoviridis E-86 J.Biochem. 2009 146 61 70 2H8G 16909418 5'-Methylthioadenosine Nucleosidase from Arabidopsis thaliana 2006-06-07 2006-10-10 Park, E.Y.,Oh, S.I.,Nam, M.J.,Shin, J.S.,Kim, K.N.,Song, H.K. Crystal structure of 5'-methylthioadenosine nucleosidase from Arabidopsis thaliana at 1.5-A resolution Proteins 2006 65 519 523 2CZJ 17488812 Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8 2005-07-13 2006-10-31 Bessho, Y.,Shibata, R.,Sekine, S.,Murayama, K.,Higashijima, K.,Hori-Takemoto, C.,Shirouzu, M.,Kuramitsu, S.,Yokoyama, S. Structural basis for functional mimicry of long-variable-arm tRNA by transfer-messenger RNA. Proc.Natl.Acad.Sci.Usa 2007 104 8293 8298 2D7I 16650853 Crystal structure of pp-GalNAc-T10 with UDP, GalNAc and Mn2+ 2005-11-21 2006-11-07 Kubota, T.,Shiba, T.,Sugioka, S.,Furukawa, S.,Sawaki, H.,Kato, R.,Wakatsuki, S.,Narimatsu, H. Structural basis of carbohydrate transfer activity by human UDP-GalNAc: polypeptide alpha-N-acetylgalactosaminyltransferase (pp-GalNAc-T10) J.Mol.Biol. 2006 359 708 727 2D7R 16650853 Crystal structure of pp-GalNAc-T10 complexed with GalNAc-Ser on lectin domain 2005-11-25 2006-11-07 Kubota, T.,Shiba, T.,Sugioka, S.,Furukawa, S.,Sawaki, H.,Kato, R.,Wakatsuki, S.,Narimatsu, H. Structural basis of carbohydrate transfer activity by human UDP-GalNAc: polypeptide alpha-N-acetylgalactosaminyltransferase (pp-GalNAc-T10) J.Mol.Biol. 2006 359 708 727 2D51 17462571 Pentaketide chromone synthase (M207G mutant) 2005-10-27 2006-11-14 Morita, H.,Kondo, S.,Oguro, S.,Noguchi, H.,Sugio, S.,Abe, I.,Kohno, T. Structural Insight into Chain-Length Control and Product Specificity of Pentaketide Chromone Synthase from Aloe arborescens Chem.Biol. 2007 14 359 369 2D52 17462571 Pentaketide chromone synthase (M207G mutant complexed with Coa) 2005-10-27 2006-11-14 Morita, H.,Kondo, S.,Oguro, S.,Noguchi, H.,Sugio, S.,Abe, I.,Kohno, T. Structural Insight into Chain-Length Control and Product Specificity of Pentaketide Chromone Synthase from Aloe arborescens Chem.Biol. 2007 14 359 369 2F0Z Crystal Structure of the Human Sialidase Neu2 in Complex with Zanamivir inhibitor 2005-11-14 2006-11-21 Chavas, L.M.G.,Kato, R.,McKimm-Breschkin, J.,Colman, P.M.,Fusi, P.,Tringali, C.,Venerando, B.,Tettamanti, G.,Monti, E.,Wakatsuki, S. Crystal Structure of the Human Sialidase Neu2 in Complex with Zanamivir inhibitor To be Published 0 0 0 0 2F10 Crystal Structure of the Human Sialidase Neu2 in Complex with Peramivir inhibitor 2005-11-14 2006-11-21 Chavas, L.M.G.,Kato, R.,McKimm-Breschkin, J.,Colman, P.M.,Fusi, P.,Tringali, C.,Venerando, B.,Tettamanti, G.,Monti, E.,Wakatsuki, S. Crystal Structure of the Human Sialidase Neu2 in Complex with Peramivir inhibitor To be Published 0 0 0 0 2F27 Crystal Structure of the Human Sialidase Neu2 E111Q-Q112E Double Mutant in Complex with DANA Inhibitor 2005-11-15 2006-11-21 Chavas, L.M.G.,Kato, R.,Fusi, P.,Tringali, C.,Venerando, B.,Tettamanti, G.,Monti, E.,Wakatsuki, S. Crystal Structure of the Human Sialidase Neu2 E111Q-Q112E Double Mutant in Complex with DANA Inhibitor To be Published 0 0 0 0 2F29 Crystal Structure of the Human Sialidase Neu2 Q116E Mutant in Complex with DANA Inhibitor 2005-11-15 2006-11-21 Chavas, L.M.G.,Kato, R.,Fusi, P.,Tringali, C.,Venerando, B.,Tettamanti, G.,Monti, E.,Wakatsuki, S. Crystal Structure of the Human Sialidase Neu2 Q116E Mutant in Complex with DANA Inhibitor To be Published 0 0 0 0 2J3R 17110339 The crystal structure of the bet3-trs31 heterodimer. 2006-08-23 2006-11-27 Kim, Y.-G.,Raunser, S.,Munger, C.,Wagner, J.,Song, Y.-L.,Cygler, M.,Walz, T.,Oh, B.-H.,Sacher, M. The Architecture of the Multisubunit Trapp I Complex Suggests a Model for Vesicle Tethering. Cell(Cambridge,Mass.) 2006 127 817 0 2D5B Crystal Structure of Thermus Thermophilus Methionyl tRNA synthetase Y225F Mutant obtained in the presence of PEG6000 2005-10-31 2006-11-28 Konno, M.,Takeda, R.,Takasaka, R.,Mori, Y.,Ishii, R.,Yokoyama, S. Y225F/A Mutation for Met-tRNA synthetase reveals importance of hydrophobic circumstances To be Published 0 0 0 0 2E0I 17107688 Crystal structure of archaeal photolyase from Sulfolobus tokodaii with two FAD molecules: Implication of a novel light-harvesting cofactor 2006-10-10 2006-11-28 Fujihashi, M.,Numoto, N.,Kobayashi, Y.,Mizushima, A.,Tsujimura, M.,Nakamura, A.,Kawarabayasi, Y.,Miki, K. Crystal Structure of Archaeal Photolyase from Sulfolobus tokodaii with Two FAD Molecules: Implication of a Novel Light-harvesting Cofactor J.Mol.Biol. 2007 365 903 910 2DE5 17161368 Crystal structure of the electron transfer complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase 2006-02-08 2006-12-05 Ashikawa, Y.,Fujimoto, Z.,Noguchi, H.,Habe, H.,Omori, T.,Yamane, H.,Nojiri, H. Electron Transfer Complex Formation between Oxygenase and Ferredoxin Components in Rieske Nonheme Iron Oxygenase System Structure 2006 14 1779 1789 2DE6 17161368 The reduced complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase 2006-02-08 2006-12-05 Ashikawa, Y.,Fujimoto, Z.,Noguchi, H.,Habe, H.,Omori, T.,Yamane, H.,Nojiri, H. Electron Transfer Complex Formation between Oxygenase and Ferredoxin Components in Rieske Nonheme Iron Oxygenase System Structure 2006 14 1779 1789 2DU2 17007814 Crystal Structure Analysis of the L-Lactate Oxidase 2006-07-19 2006-12-05 Umena, Y.,Yorita, K.,Matsuoka, T.,Kita, A.,Fukui, K.,Morimoto, Y. The crystal structure of L-lactate oxidase from Aerococcus viridans at 2.1A resolution reveals the mechanism of strict substrate recognition Biochem.Biophys.Res.Commun. 2006 350 249 256 2F7L Crystal structure of Sulfolobus tokodaii phosphomannomutase/phosphoglucomutase 2005-12-01 2006-12-05 Kawamura, T.,Sakai, N.,Akutsu, J.,Zhang, Z.,Watanabe, N.,Kawarabayashi, Y.,Tanaka, I. Crystal structure of Sulfolobus tokodaii phosphomannomutase/phosphoglucomutase To be Published 0 0 0 0 1VS3 17114947 Crystal Structure of the tRNA Pseudouridine Synthase TruA From Thermus thermophilus HB8 2006-06-28 2006-12-12 Dong, X.,Bessho, Y.,Shibata, R.,Nishimoto, M.,Shirouzu, M.,Kuramitsu, S.,Yokoyama, S. Crystal structure of tRNA pseudouridine synthase TruA from Thermus thermophilus HB8. Rna Biol. 2006 3 115 122 2DG0 17166853 Crystal structure of Drp35, a 35kDa drug responsive protein from Staphylococcus aureus 2006-03-07 2006-12-12 Tanaka, Y.,Morikawa, K.,Ohki, Y.,Yao, M.,Tsumoto, K.,Watanabe, N.,Ohta, T.,Tanaka, I. Structural and Mutational Analyses of Drp35 from Staphylococcus aureus: A POSSIBLE MECHANISM FOR ITS LACTONASE ACTIVITY J.Biol.Chem. 2007 282 5770 5780 2DSO 17166853 Crystal structure of D138N mutant of Drp35, a 35kDa drug responsive protein from Staphylococcus aureus 2006-07-04 2006-12-12 Tanaka, Y.,Morikawa, K.,Ohki, Y.,Yao, M.,Tsumoto, K.,Watanabe, N.,Ohta, T.,Tanaka, I. Structural and Mutational Analyses of Drp35 from Staphylococcus aureus: A POSSIBLE MECHANISM FOR ITS LACTONASE ACTIVITY J.Biol.Chem. 2007 282 5770 5780 2DC1 17651440 Crystal Structure Of L-Aspartate Dehydrogenase From Hyperthermophilic Archaeon Archaeoglobus fulgidus 2005-12-19 2006-12-26 Yoneda, K.,Sakuraba, H.,Tsuge, H.,Katunuma, N.,Ohshima, T. Crystal structure of archaeal highly thermostable L-aspartate dehydrogenase/NAD/citrate ternary complex. Febs J. 2007 274 4315 4325 2DXS 17125247 Crystal structure of HCV NS5B RNA polymerase complexed with a tetracyclic inhibitor 2006-08-30 2006-12-26 Ikegashira, K.,Oka, T.,Hirashima, S.,Noji, S.,Yamanaka, H.,Hara, Y.,Adachi, T.,Tsuruha, J.,Doi, S.,Hase, Y.,Noguchi, T.,Ando, I.,Ogura, N.,Ikeda, S.,Hashimoto, H. Discovery of Conformationally Constrained Tetracyclic Compounds as Potent Hepatitis C Virus NS5B RNA Polymerase Inhibitors J.Med.Chem. 2006 49 6950 6953 2IVH 17175542 Crystal structure of the nuclease domain of ColE7 (H545Q mutant) in complex with an 18-bp duplex DNA 2006-06-13 2007-01-02 Wang, Y.T.,Yang, W.J.,Li, C.L.,Doudeva, L.G.,Yuan, H.S. Structural Basis for Sequence-Dependent DNA Cleavage by Nonspecific Endonucleases. 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J.Mol.Biol. 2008 375 119 135 2YTZ 18789948 Complex structure of Trm1 from Pyrococcus horikoshii with S-adenosyl-L-Homocystein in the orthorhombic crystal-lattice 2007-04-05 2007-10-09 Ihsanawati,Nishimoto, M.,Higashijima, K.,Shirouzu, M.,Grosjean, H.,Bessho, Y.,Yokoyama, S. Crystal Structure of tRNA N(2),N(2)-Guanosine Dimethyltransferase Trm1 from Pyrococcus horikoshii J.Mol.Biol. 2008 383 871 884 2E4Q 17850818 Crystal structure of BphA3 (reduced form) 2006-12-15 2007-10-16 Senda, M.,Kishigami, S.,Kimura, S.,Fukuda, M.,Ishida, T.,Senda, T. Molecular Mechanism of the Redox-dependent Interaction between NADH-dependent Ferredoxin Reductase and Rieske-type [2Fe-2S] Ferredoxin J.Mol.Biol. 2007 373 382 400 2YVF 17850818 Crystal structure of ferredoxin reductase BPHA4 (hydroquinone) 2007-04-12 2007-10-16 Senda, M.,Kishigami, S.,Kimura, S.,Fukuda, M.,Ishida, T.,Senda, T. 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Homodimeric Structure and Double-stranded RNA Cleavage Activity of the C-terminal RNase III Domain of Human Dicer J.Mol.Biol. 2007 374 106 120 2PSM 17947230 Crystal structure of Interleukin 15 in complex with Interleukin 15 receptor alpha 2007-05-07 2007-11-06 Olsen, S.K.,Ota, N.,Kishishita, S.,Kukimoto-Niino, M.,Murayama, K.,Uchiyama, H.,Toyama, M.,Terada, T.,Shirouzu, M.,Kanagawa, O.,Yokoyama, S. Crystal Structure of the Interleukin-15{middle dot}Interleukin-15 Receptor {alpha} Complex: INSIGHTS INTO TRANS AND CIS PRESENTATION J.Biol.Chem. 2007 282 37191 37204 2E27 18326040 Crystal structure of Fv fragment of anti-ciguatoxin antibody complexed with ABC-ring of ciguatoxin 2006-11-08 2007-11-13 Tsumoto, K.,Yokota, A.,Tanaka, Y.,Ui, M.,Tsumuraya, T.,Fujii, I.,Kumagai, I.,Nagumo, Y.,Oguri, H.,Inoue, M.,Hirama, M. Critical contribution of aromatic rings to specific recognition of polyether rings. The case of ciguatoxin CTX3C-ABC and its specific antibody 1C49. J.Biol.Chem. 2008 283 12259 12266 2OWY 17426134 The recombination-associated protein RdgC adopts a novel toroidal architecture for DNA binding 2007-02-17 2007-11-20 Ha, J.Y.,Kim, H.K.,Kim, D.J.,Kim, K.H.,Oh, S.J.,Lee, H.H.,Yoon, H.J.,Song, H.K.,Suh, S.W. The recombination-associated protein RdgC adopts a novel toroidal architecture for DNA binding Nucleic Acids Res. 2007 35 2671 2681 2E77 17517371 Crystal structure of L-lactate oxidase with pyruvate complex 2007-01-06 2007-11-27 Li, S.J.,Umena, Y.,Yorita, K.,Matsuoka, T.,Kita, A.,Fukui, K.,Morimoto, Y. Crystallographic study on the interaction of L-lactate oxidase with pyruvate at 1.9 Angstrom resolution. Biochem.Biophys.Res.Commun. 2007 358 1002 1007 2E3K Crystal structure of the human Brd2 second bromodomain in complexed with the acetylated histone H4 peptide 2006-11-27 2007-12-11 Padmanabhan, B.,Umehara, T.,Nakano, K.,Jang, M.K.,Ozato, K.,Yokohama, S. Structural basis for diacetylated histone H4 tail recognition by the second bromodomain of human BRD2 To be Published 0 0 0 0 2E47 Crystal Structure Analysis of the clock protein EA4 (glycosylation form) 2006-12-05 2007-12-11 Hiraki, T.,Shibayama, N.,Tame, J.R.M.,Akashi, S.,Park, S.-Y. the clock protein EA4 ticks away with movement of a mobile copper ion To be Published 0 0 0 0 2E3M 18184806 Crystal structure of CERT START domain 2006-11-28 2007-12-18 Kudo, N.,Kumagai, K.,Tomishige, N.,Yamaji, T.,Wakatsuki, S.,Nishijima, M.,Hanada, K.,Kato, R. Structural basis for specific lipid recognition by CERT responsible for nonvesicular trafficking of ceramide. Proc.Natl.Acad.Sci.Usa 2008 105 488 493 2E3N 18184806 Crystal structure of CERT START domain in complex with C6-ceramide (P212121) 2006-11-28 2007-12-18 Kudo, N.,Kumagai, K.,Tomishige, N.,Yamaji, T.,Wakatsuki, S.,Nishijima, M.,Hanada, K.,Kato, R. Structural basis for specific lipid recognition by CERT responsible for nonvesicular trafficking of ceramide. Proc.Natl.Acad.Sci.Usa 2008 105 488 493 2E3P 18184806 Crystal structure of CERT START domain in complex with C16-cearmide (P1) 2006-11-28 2007-12-18 Kudo, N.,Kumagai, K.,Tomishige, N.,Yamaji, T.,Wakatsuki, S.,Nishijima, M.,Hanada, K.,Kato, R. Structural basis for specific lipid recognition by CERT responsible for nonvesicular trafficking of ceramide. Proc.Natl.Acad.Sci.Usa 2008 105 488 493 2E3R 18184806 Crystal structure of CERT START domain in complex with C18-ceramide (P1) 2006-11-28 2007-12-18 Kudo, N.,Kumagai, K.,Tomishige, N.,Yamaji, T.,Wakatsuki, S.,Nishijima, M.,Hanada, K.,Kato, R. Structural basis for specific lipid recognition by CERT responsible for nonvesicular trafficking of ceramide. Proc.Natl.Acad.Sci.Usa 2008 105 488 493 2E3S 18184806 Crystal structure of CERT START domain co-crystallized with C24-ceramide (P21) 2006-11-28 2007-12-18 Kudo, N.,Kumagai, K.,Tomishige, N.,Yamaji, T.,Wakatsuki, S.,Nishijima, M.,Hanada, K.,Kato, R. Structural basis for specific lipid recognition by CERT responsible for nonvesicular trafficking of ceramide. Proc.Natl.Acad.Sci.Usa 2008 105 488 493 2E52 19966419 Crystal structural analysis of HindIII restriction endonuclease in complex with cognate DNA at 2.0 angstrom resolution 2006-12-18 2007-12-18 Watanabe, N.,Takasaki, Y.,Sato, C.,Ando, S.,Tanaka, I. Structures of restriction endonuclease HindIII in complex with its cognate DNA and divalent cations Acta Crystallogr.,Sect.D 2009 65 1326 1333 2E68 Crystal structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with dihydroorotate 2006-12-26 2008-01-15 Inaoka, D.K.,Shimizu, H.,Sakamoto, K.,Shiba, T.,Kurisu, G.,Nara, T.,Aoki, T.,Harada, S.,Kita, K. Crystal structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with dihydroorotate To be Published 0 0 0 0 2E6F Crystal structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with oxonate 2006-12-26 2008-01-15 Inaoka, D.K.,Shimizu, H.,Sakamoto, K.,Shiba, T.,Kurisu, G.,Nara, T.,Aoki, T.,Harada, S.,Kita, K. Crystal structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with oxonate To be Published 0 0 0 0 2E8G 18186487 The structure of protein from P. horikoshii at 1.7 angstrom resolution 2007-01-19 2008-01-22 Gao, Y.-G.,Yao, M.,Tanaka, I. Structure of protein PH0536 from Pyrococcus horikoshii at 1.7 A resolution reveals a novel assembly of an oligonucleotide/oligosaccharide-binding fold and an alpha-helical bundle Proteins 2008 71 503 508 2P4V 17917675 Crystal structure of the transcript cleavage factor, GreB at 2.6A resolution 2007-03-13 2008-01-22 Vassylyeva, M.N.,Svetlov, V.,Dearborn, A.D.,Klyuyev, S.,Artsimovitch, I.,Vassylyev, D.G. The carboxy-terminal coiled-coil of the RNA polymerase beta'-subunit is the main binding site for Gre factors. Embo Rep. 2007 8 1038 1043 2P52 17876829 mouse p53 DNA-binding domain in zinc-free oxidized state 2007-03-14 2008-01-29 Kwon, E.,Kim, D.Y.,Suh, S.W.,Kim, K.K. Crystal structure of the mouse p53 core domain in zinc-free state. Proteins 2008 70 280 283 2E28 18511452 Crystal structure analysis of pyruvate kinase from Bacillus stearothermophilus 2006-11-09 2008-02-05 Suzuki, K.,Ito, S.,Shimizu-Ibuka, A.,Sakai, H. Crystal structure of pyruvate kinase from Geobacillus stearothermophilus. J.Biochem. 2008 144 305 312 2ZDI 18201719 Crystal structure of Prefoldin from Pyrococcus horikoshii OT3 2007-11-23 2008-02-05 Ohtaki, A.,Kida, H.,Miyata, Y.,Ide, N.,Yonezawa, A.,Arakawa, T.,Iizuka, R.,Noguchi, K.,Kita, A.,Odaka, M.,Miki, K.,Yohda, M. Structure and molecular dynamics simulation of archaeal prefoldin: the molecular mechanism for binding and recognition of nonnative substrate proteins J.Mol.Biol. 2008 376 1130 1141 2EJW Homoserine Dehydrogenase from Thermus thermophilus HB8 2007-03-21 2008-02-12 Omi, R.,Goto, M.,Miyahara, I.,Hirotsu, K. Crystal Structure of Homoserine Dehydrogenase from Thermus thermophilus HB8 To be Published 0 0 0 0 2Z9Y 18184806 Crystal structure of CERT START domain in complex with C10-diacylglycerol 2007-09-26 2008-02-12 Kudo, N.,Kumagai, K.,Tomishige, N.,Yamaji, T.,Wakatsuki, S.,Nishijima, M.,Hanada, K.,Kato, R. Structural basis for specific lipid recognition by CERT responsible for nonvesicular trafficking of ceramide. Proc.Natl.Acad.Sci.Usa 2008 105 488 493 2Z9Z 18184806 Crystal structure of CERT START domain(N504A mutant), in complex with C10-diacylglycerol 2007-09-26 2008-02-12 Kudo, N.,Kumagai, K.,Tomishige, N.,Yamaji, T.,Wakatsuki, S.,Nishijima, M.,Hanada, K.,Kato, R. Structural basis for specific lipid recognition by CERT responsible for nonvesicular trafficking of ceramide. Proc.Natl.Acad.Sci.Usa 2008 105 488 493 2ZFD 18237745 The crystal structure of plant specific calcium binding protein AtCBL2 in complex with the regulatory domain of AtCIPK14 2007-12-29 2008-02-19 Akaboshi, M.,Hashimoto, H.,Ishida, H.,Saijo, S.,Koizumi, N.,Sato, M.,Shimizu, T. The crystal structure of plant-specific calcium-binding protein AtCBL2 in complex with the regulatory domain of AtCIPK14 J.Mol.Biol. 2008 377 246 257 2EFD 20833725 Ara7/AtVps9a 2007-02-22 2008-02-26 Uejima, T.,Ihara, K.,Goh, T.,Ito, E.,Sunada, M.,Ueda, T.,Nakano, A.,Wakatsuki, S. GDP-bound and nucleotide-free intermediates of the guanine nucleotide exchange in the Rab5/Vps9 system J.Biol.Chem. 2010 285 36689 36697 2EFE 20833725 Ara7-GDPNH2/AtVps9a 2007-02-22 2008-02-26 Uejima, T.,Ihara, K.,Goh, T.,Ito, E.,Sunada, M.,Ueda, T.,Nakano, A.,Wakatsuki, S. GDP-bound and nucleotide-free intermediates of the guanine nucleotide exchange in the Rab5/Vps9 system J.Biol.Chem. 2010 285 36689 36697 2EPF 18931410 Crystal Structure of Zinc-Bound Pseudecin From Pseudechis Porphyriacus 2007-03-29 2008-03-11 Suzuki, N.,Yamazaki, Y.,Brown, R.L.,Fujimoto, Z.,Morita, T.,Mizuno, H. Structures of pseudechetoxin and pseudecin, two snake-venom cysteine-rich secretory proteins that target cyclic nucleotide-gated ion channels: implications for movement of the C-terminal cysteine-rich domain Acta Crystallogr.,Sect.D 2008 64 1034 1042 2Z9D 18337254 The crystal structure of AzoR (azoreductase) from Escherichia coli: Oxidized AzoR in orthorhombic crystals 2007-09-18 2008-03-11 Ito, K.,Nakanishi, M.,Lee, W.C.,Zhi, Y.,Sasaki, H.,Zenno, S.,Saigo, K.,Kitade, Y.,Tanokura, M. Expansion of Substrate Specificity and Catalytic Mechanism of Azoreductase by X-ray Crystallography and Site-directed Mutagenesis J.Biol.Chem. 2008 283 13889 13896 2EIZ 18227432 Crystal structure of humanized HYHEL-10 fv mutant(HW47Y)-hen lysozyme complex 2007-03-14 2008-03-18 Nakanishi, T.,Tsumoto, K.,Yokota, A.,Kondo, H.,Kumagai, I. Critical contribution of VH-VL interaction to reshaping of an antibody: the case of humanization of anti-lysozyme antibody, HyHEL-10 Protein Sci. 2008 17 261 270 2EJ8 Crystal structure of APPL1 PTB domain at 1.8A 2007-03-15 2008-03-18 Tanabe, H.,Hosaka, T.,Murayama, K.,Terada, T.,Shirouzu, M.,Yokoyama, S. Crystal structure of APPL1 PTB domain at 1.8A To be Published 0 0 0 0 2YY8 18068186 Crystal structure of archaeal tRNA-methylase for position 56 (aTrm56) from Pyrococcus horikoshii, complexed with S-adenosyl-L-methionine 2007-04-27 2008-03-18 Kuratani, M.,Bessho, Y.,Nishimoto, M.,Grosjean, H.,Yokoyama, S. Crystal structure and mutational study of a unique SpoU family archaeal methylase that forms 2'-O-methylcytidine at position 56 of tRNA J.Mol.Biol. 2008 375 1064 1075 2YY8 18068186 Crystal structure of archaeal tRNA-methylase for position 56 (aTrm56) from Pyrococcus horikoshii, complexed with S-adenosyl-L-methionine 2007-04-27 2008-03-18 Kuratani, M.,Bessho, Y.,Nishimoto, M.,Grosjean, H.,Yokoyama, S. Crystal structure and mutational study of a unique SpoU family archaeal methylase that forms 2'-O-methylcytidine at position 56 of tRNA J.Mol.Biol. 2008 375 1064 1075 2Z1N 18175326 Crystal structure of APE0912 from Aeropyrum pernix K1 2007-05-10 2008-03-18 Yamamura, A.,Ichimura, T.,Mimoto, F.,Ohtsuka, J.,Miyazono, K.,Okai, M.,Kamo, M.,Lee, W.-C.,Nagata, K.,Tanokura, M. A unique catalytic triad revealed by the crystal structure of APE0912, a short-chain dehydrogenase/reductase family protein from Aeropyrum pernix K1 Proteins 2008 70 1640 1645 2Z8D 18332142 The galacto-N-biose-/lacto-N-biose I-binding protein (GL-BP) of the ABC transporter from Bifidobacterium longum in complex with lacto-N-biose 2007-09-05 2008-03-18 Suzuki, R.,Wada, J.,Katayama, T.,Fushinobu, S.,Wakagi, T.,Shoun, H.,Sugimoto, H.,Tanaka, A.,Kumagai, H.,Ashida, H.,Kitaoka, M.,Yamamoto, K. Structural and thermodynamic analyses of solute-binding Protein from Bifidobacterium longum specific for core 1 disaccharide and lacto-N-biose I. J.Biol.Chem. 2008 283 13165 13173 2EJX 23836863 Crystal structure of the hypothetical protein STK_08120 from Sulfolobus tokodaii 2007-03-21 2008-03-25 Miyakawa, T.,Sawano, Y.,Miyazono, K.,Miyauchi, Y.,Hatano, K.,Tanokura, M. A thermoacidophile-specific protein family, DUF3211, functions as a fatty acid carrier with novel binding mode J.Bacteriol. 2013 195 4005 4012 2EJX 23836863 Crystal structure of the hypothetical protein STK_08120 from Sulfolobus tokodaii 2007-03-21 2008-03-25 Miyakawa, T.,Sawano, Y.,Miyazono, K.,Miyauchi, Y.,Hatano, K.,Tanokura, M. A thermoacidophile-specific protein family, DUF3211, functions as a fatty acid carrier with novel binding mode J.Bacteriol. 2013 195 4005 4012 2ZHH 18334645 Crystal structure of SoxR 2008-02-05 2008-03-25 Watanabe, S.,Kita, A.,Kobayashi, K.,Miki, K. Crystal structure of the [2Fe-2S] oxidative-stress sensor SoxR bound to DNA Proc.Natl.Acad.Sci.Usa 2008 105 4121 4126 2YQU Crystal structures and evolutionary relationship of two different lipoamide dehydrogenase(E3s) from Thermus thermophilus 2007-03-31 2008-04-01 Kondo, H.,Hossain, M.T.,Adachi, W.,Nakai, T.,Kamiya, N.,Kuramitsu, S.,Sekiguchi, T.,Takenaka, A. Crystal structures and evolutionary relationship of two different lipoamide dehydrogenase(E3s) from Thermus thermophilus To be Published 0 0 0 0 2YSS 18227432 Crystal structure of Humanized HYHEL-10 FV mutant(HQ39KW47Y)-HEN lysozyme complex 2007-04-03 2008-04-08 Nakanishi, T.,Tsumoto, K.,Yokota, A.,Kondo, H.,Kumagai, I. Critical contribution of VH-VL interaction to reshaping of an antibody: the case of humanization of anti-lysozyme antibody, HyHEL-10 Protein Sci. 2008 17 261 270 2YR4 18417467 Crystal structure of L-phenylalanine oxiase from Psuedomonas sp. P-501 2007-04-02 2008-04-15 Ida, K.,Kurabayashi, M.,Suguro, M.,Hiruma, Y.,Hikima, T.,Yamomoto, M.,Suzuki, H. Structural basis of proteolytic activation of L-phenylalanine oxidase from Pseudomonas sp. P-501. J.Biol.Chem. 2008 283 16584 16590 2YR6 18417467 Crystal structure of L-phenylalanine oxidase from Psuedomonas sp.P501 2007-04-02 2008-04-15 Ida, K.,Kurabayashi, M.,Suguro, M.,Hiruma, Y.,Hikima, T.,Yamomoto, M.,Suzuki, H. Structural basis of proteolytic activation of L-phenylalanine oxidase from Pseudomonas sp. P-501. J.Biol.Chem. 2008 283 16584 16590 2YV5 Crystal structure of Yjeq from Aquifex aeolicus 2007-04-09 2008-04-15 Wang, H.,Kaminishi, T.,Hanawa-Suetsugu, K.,Takemoto, C.,Terada, T.,Shirouzu, M.,Yokoyama, S. Crystal structure of YjeQ from Aquifex aeolicus To be Published 0 0 0 0 2YVH 20691702 Crystal structure of the operator-binding form of the multi-drug binding transcriptional repressor CgmR 2007-04-12 2008-04-15 Itou, H.,Watanabe, N.,Yao, M.,Shirakihara, Y.,Tanaka, I. Crystal Structures of the Multidrug Binding Repressor Corynebacteriumglutamicum CgmR in Complex with Inducers and with an Operator J.Mol.Biol. 2010 403 174 184 2YVQ Crystal structure of MGS domain of carbamoyl-phosphate synthetase from homo sapiens 2007-04-13 2008-04-15 Xie, Y.,Ihsanawati,Kishishita, S.,Murayama, K.,Takemoto, C.,Shirozu, M.,Yokoyama, S. Crystal structure of MGS domain of carbamoyl-phosphate synthetase from homo sapiens To be Published 0 0 0 0 2YWK Crystal structure of RRM-domain derived from human putative RNA-binding protein 11 2007-04-20 2008-04-22 Kawazoe, M.,Takemoto, C.,Kaminishi, T.,Uchikubo-Kamo, T.,Nishino, A.,Morita, S.,Terada, T.,Shirouzu, M.,Yokoyama, S. Crystal structure of RRM-domain derived from human putative RNA-binding protein 11 To be Published 0 0 0 0 2YX1 18384044 Crystal structure of M.jannaschii tRNA m1G37 methyltransferase 2007-04-23 2008-04-22 Goto-Ito, S.,Ito, T.,Ishii, R.,Muto, Y.,Bessho, Y.,Yokoyama, S. Crystal structure of archaeal tRNA(m(1)G37)methyltransferase aTrm5. Proteins 2008 72 1274 1289 2YZ7 18453685 X-ray analyses of 3-hydroxybutyrate dehydrogenase from Alcaligenes faecalis 2007-05-04 2008-04-22 Hoque, M.M.,Shimizu, S.,Hossain, M.T.,Yamamoto, T.,Imamura, S.,Suzuki, K.,Tsunoda, M.,Amano, H.,Sekiguchi, T.,Takenaka, A. The structures of Alcaligenes faecalisD-3-hydroxybutyrate dehydrogenase before and after NAD(+) and acetate binding suggest a dynamical reaction mechanism as a member of the SDR family. Acta Crystallogr.,Sect.D 2008 64 496 505 2Z5H 18483193 Crystal structure of the head-to-tail junction of tropomyosin complexed with a fragment of TnT 2007-07-12 2008-04-22 Murakami, K.,Stewart, M.,Nozawa, K.,Tomii, K.,Kudou, N.,Igarashi, N.,Shirakihara, Y.,Wakatsuki, S.,Yasunaga, T.,Wakabayashi, T. Structural basis for tropomyosin overlap in thin (actin) filaments and the generation of a molecular swivel by troponin-T Proc.Natl.Acad.Sci.USA 2008 105 7200 7205 2ZFA 18367206 Structure of Lactate Oxidase at pH4.5 from AEROCOCCUS VIRIDANS 2007-12-26 2008-04-22 Furuichi, M.,Suzuki, N.,Dhakshnamoorhty, B.,Minagawa, H.,Yamagishi, R.,Watanabe, Y.,Goto, Y.,Kaneko, H.,Yoshida, Y.,Yagi, H.,Waga, I.,Kumar, P.K.R.,Mizuno, H. X-ray structures of Aerococcus viridans lactate oxidase and its complex with D-lactate at pH 4.5 show an alpha-hydroxyacid oxidation mechanism J.Mol.Biol. 2008 378 436 446 2ZL2 18468623 Crystal structure of H.pylori ClpP in complex with the peptide NVLGFTQ 2008-04-02 2008-04-22 Kim, D.Y.,Kim, K.K. The structural basis for the activation and peptide recognition of bacterial ClpP J.Mol.Biol. 2008 379 760 771 2YY0 Crystal Structure of MS0802, c-Myc-1 binding protein domain from Homo sapiens 2007-04-27 2008-04-29 Xie, Y.,Wang, H.,Ihsanawati,Kishishita, S.,Takemoto, C.,Murayama, K.,Shirozu, M.,Yokoyama, S. crystal structure of c-Myc-1 binding protein domain from Homo sapiens To be Published 0 0 0 0 2ZAT 18334214 Crystal structure of a mammalian reductase 2007-10-10 2008-04-29 Tanaka, N.,Aoki, K.,Ishikura, S.,Nagano, M.,Imamura, Y.,Hara, A.,Nakamura, K.T. Molecular basis for peroxisomal localization of tetrameric carbonyl reductase. Structure 2008 16 388 397 2ZD0 18287284 Crystal structures and thermostability of mutant TRAP3 A5 (ENGINEERED TRAP) 2007-11-15 2008-04-29 Watanabe, M.,Mishima, Y.,Yamashita, I.,Park, S.Y.,Tame, J.R.,Heddle, J.G. Intersubunit linker length as a modifier of protein stability: crystal structures and thermostability of mutant TRAP. Protein Sci. 2008 17 518 526 2YZC Crystal structure of uricase from Arthrobacter globiformis in complex with allantoate 2007-05-05 2008-05-06 Juan, E.C.M.,Hossain, M.T.,Hoque, M.M.,Yamamoto, T.,Imamura, S.,Suzuki, K.,Sekiguchi, T.,Takenaka, A. Trapping of the uric acid substrate in the crystal structure of urate oxidase from Arthrobacter globiformis To be Published 0 0 0 0 2YZD Crystal structure of uricase from Arthrobacter globiformis in complex with 8-azaxanthin (inhibitor) 2007-05-05 2008-05-06 Juan, E.C.M.,Hossain, M.T.,Hoque, M.M.,Yamamoto, T.,Imamura, S.,Suzuki, K.,Sekiguchi, T.,Takenaka, A. Trapping of the uric acid substrate in the crystal structure of urate oxidase from Arthrobacter globiformis To be Published 0 0 0 0 2YZE Crystal structure of uricase from Arthrobacter globiformis 2007-05-05 2008-05-06 Juan, E.C.M.,Hossain, M.T.,Hoque, M.M.,Yamamoto, T.,Imamura, S.,Suzuki, K.,Sekiguchi, T.,Takenaka, A. Trapping of the uric acid substrate in the crystal structure of urate oxidase from Arthrobacter globiformis To be Published 0 0 0 0 2Z91 18463096 Crystal structure of the Fab fragment of anti-ciguatoxin antibody 10C9 2007-09-14 2008-05-06 Ui, M.,Tanaka, Y.,Tsumuraya, T.,Fujii, I.,Inoue, M.,Hirama, M.,Tsumoto, K. How Protein Recognizes Ladder-like Polycyclic Ethers: INTERACTIONS BETWEEN CIGUATOXIN (CTX3C) FRAGMENTS AND ITS SPECIFIC ANTIBODY 10C9 J.Biol.Chem. 2008 283 19440 19447 3B5H 18430721 Crystal structure of the extracellular portion of HAb18G/CD147 2007-10-26 2008-05-06 Yu, X.L.,Hu, T.,Du, J.M.,Ding, J.P.,Yang, X.M.,Zhang, J.,Yang, B.,Shen, X.,Zhang, Z.,Zhong, W.D.,Wen, N.,Jiang, H.,Zhu, P.,Chen, Z.N. Crystal structure of HAb18G/CD147: implications for immunoglobulin superfamily homophilic adhesion. J.Biol.Chem. 2008 283 18056 18065 3B5H 18430721 Crystal structure of the extracellular portion of HAb18G/CD147 2007-10-26 2008-05-06 Yu, X.L.,Hu, T.,Du, J.M.,Ding, J.P.,Yang, X.M.,Zhang, J.,Yang, B.,Shen, X.,Zhang, Z.,Zhong, W.D.,Wen, N.,Jiang, H.,Zhu, P.,Chen, Z.N. Crystal structure of HAb18G/CD147: implications for immunoglobulin superfamily homophilic adhesion. J.Biol.Chem. 2008 283 18056 18065 2Z0O Crystal structure of APPL1-BAR-PH domain 2007-05-07 2008-05-13 Murayama, K.,Kato-Murayama, M.,Terada, T.,Shirouzu, M.,Yokoyama, S. Crystal structure of APPL1-BAR-PH domain To be Published 0 0 0 0 2Z0P 18809383 Crystal structure of PH domain of Bruton's tyrosine kinase 2007-05-07 2008-05-13 Murayama, K.,Kato-Murayama, M.,Mishima, C.,Akasaka, R.,Shirouzu, M.,Fukui, Y.,Yokoyama, S. Crystal structure of the Bruton's tyrosine kinase PH domain with phosphatidylinositol Biochem.Biophys.Res.Commun. 2008 377 23 28 2Z1B Crystal Structure of 5-aminolevulinic acid dehydratase (ALAD) from Mus musculs 2007-05-08 2008-05-13 Xie, Y.,Wang, H.,Kawazoe, M.,Kishishita, S.,Murayama, K.,Takemoto, C.,Terada, T.,Mikako, M.,Shirozu, M.,Yokoyama, S. Crystal Structure of 5-aminolevulinic acid dehydratase (ALAD) from Mus musculs To be Published 0 0 0 0 3BUZ 18490658 Crystal structure of ia-bTAD-actin complex 2008-01-04 2008-05-13 Tsuge, H.,Nagahama, M.,Oda, M.,Iwamoto, S.,Utsunomiya, H.,Marquez, V.E.,Katunuma, N.,Nishizawa, M.,Sakurai, J. Structural basis of actin recognition and arginine ADP-ribosylation by Clostridium perfringens iota-toxin Proc.Natl.Acad.Sci.Usa 2008 105 7399 7404 2ZOF 18550540 Crystal structure of mouse carnosinase CN2 complexed with MN and bestatin 2008-05-14 2008-06-10 Unno, H.,Yamashita, T.,Ujita, S.,Okumura, N.,Otani, H.,Okumura, A.,Nagai, K.,Kusunoki, M. Structural basis for substrate recognition and hydrolysis by mouse carnosinase CN2. J.Biol.Chem. 2008 283 27289 27299 2ZOG 18550540 Crystal structure of mouse carnosinase CN2 complexed with ZN and bestatin 2008-05-14 2008-06-10 Unno, H.,Yamashita, T.,Ujita, S.,Okumura, N.,Otani, H.,Okumura, A.,Nagai, K.,Kusunoki, M. Structural basis for substrate recognition and hydrolysis by mouse carnosinase CN2. J.Biol.Chem. 2008 283 27289 27299 2Z44 Crystal Structure of Selenomethionine-labeled ORF134 2007-06-12 2008-06-24 Tomimoto, Y.,Ihara, K.,Onizuka, T.,Kanai, S.,Ashida, H.,Yokota, A.,Tanaka, S.,Miyasaka, H.,Yamada, Y.,Kato, R.,Wakatsuki, S. Crystal Structure of ORF134 To be Published 0 0 0 0 2Z45 Crystal Structure of Zn-bound ORF134 2007-06-12 2008-06-24 Tomimoto, Y.,Ihara, K.,Onizuka, T.,Kanai, S.,Ashida, H.,Yokota, A.,Tanaka, S.,Miyasaka, H.,Yamada, Y.,Kato, R.,Wakatsuki, S. Crystal Structure of ORF134 To be Published 0 0 0 0 2Z46 Crystal Structure of Native-ORF134 2007-06-12 2008-06-24 Tomimoto, Y.,Ihara, K.,Onizuka, T.,Kanai, S.,Ashida, H.,Yokota, A.,Tanaka, S.,Miyasaka, H.,Yamada, Y.,Kato, R.,Wakatsuki, S. Crystal Structure of ORF134 To be Published 0 0 0 0 2QFV 18552125 Crystal structure of Saccharomyces cerevesiae mitochondrial NADP(+)-dependent isocitrate dehydrogenase in complex with NADP(+) 2007-06-28 2008-07-01 Peng, Y.J.,Zhong, C.,Huang, W.,Ding, J.P. Structural studies of Saccharomyces cerevesiae mitochondrial NADP-dependent isocitrate dehydrogenase in different enzymatic states reveal substantial conformational changes during the catalytic reaction Protein Sci. 2008 17 1542 1554 2QFX 18552125 Crystal structure of Saccharomyces cerevesiae mitochondrial NADP(+)-dependent isocitrate dehydrogenase in complex with NADPH, a-ketoglutarate and Ca(2+) 2007-06-28 2008-07-01 Peng, Y.J.,Zhong, C.,Huang, W.,Ding, J.P. 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Structural basis for specific cleavage of Lys 63-linked polyubiquitin chains Nature 2008 455 358 362 2ZNV 18758443 Crystal structure of human AMSH-LP DUB domain in complex with Lys63-linked ubiquitin dimer 2008-05-01 2008-09-02 Sato, Y.,Yoshikawa, A.,Yamagata, A.,Mimura, H.,Yamashita, M.,Ookata, K.,Nureki, O.,Iwai, K.,Komada, M.,Fukai, S. Structural basis for specific cleavage of Lys 63-linked polyubiquitin chains Nature 2008 455 358 362 2ZQN 19153466 Crystal structure of the earthworm R-type lectin C-half in complex with Lactose 2008-08-13 2008-09-02 Suzuki, R.,Kuno, A.,Hasegawa, T.,Hirabayashi, J.,Kasai, K.,Momma, M.,Fujimoto, Z. Sugar-complex structures of the C-half domain of the galactose-binding lectin EW29 from the earthworm Lumbricus terrestris Acta Crystallogr.,Sect.D 2009 65 49 57 2Z8H Structure of mouse Bach1 BTB domain 2007-09-05 2008-09-09 Ito, N.,Watanabe-Matsui, M.,Igarashi, K.,Murayama, K. 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Nature 2009 461 1144 1148 3A4L 19805283 Crystal structure of archaeal O-phosphoseryl-tRNA(Sec) kinase 2009-07-10 2009-10-20 Araiso, Y.,Sherrer, R.L.,Ishitani, R.,Ho, J.M.L.,Soll, D.,Nureki, O. Structure of a tRNA-dependent kinase essential for selenocysteine decoding Proc.Natl.Acad.Sci.USA 2009 106 16215 16220 3A4M 19805283 Crystal structure of archaeal O-phosphoseryl-tRNA(Sec) kinase 2009-07-10 2009-10-20 Araiso, Y.,Sherrer, R.L.,Ishitani, R.,Ho, J.M.L.,Soll, D.,Nureki, O. Structure of a tRNA-dependent kinase essential for selenocysteine decoding Proc.Natl.Acad.Sci.USA 2009 106 16215 16220 2ZUL Crystal structure of Thermus thermophilus 16S rRNA methyltransferase RsmC (TTHA0533) in complex with cofactor S-adenosyl-L-Methionine 2008-10-21 2009-10-27 Wang, H.,Kawazoe, M.,Tatsuguchi, A.,Naoe, C.,Takemoto, C.,Yokoyama, S. 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Crystal structure of PRY-SPRY domain of human TRIM72 Proteins 2009 0 0 0 3KR9 Crystal structure of Streptococcus pneumoniae Sp1610, a putative tRNA (m1A22) methyltransferase 2009-11-18 2009-12-22 Ta, M.H.,Kim, K.K. Crystal structure of Streptococcus pneumoniae Sp1610, a putative tRNA (m1A22) methyltransferase in complex with S-adenosyl-L-methionine To be Published 0 0 0 0 3KU1 Crystal structure of Streptococcus pneumoniae Sp1610, a putative tRNA (m1A22) methyltransferase, in complex with S-adenosyl-L-methionine 2009-11-26 2009-12-22 Ta, M.H.,Kim, K.K. Crystal structure of Streptococcus pneumoniae Sp1610, a putative tRNA (m1A22) methyltransferase in complex with S-adenosyl-L-methionine to be published 0 0 0 0 3L0I 20176951 Complex structure of SidM/DrrA with the wild type Rab1 2009-12-10 2009-12-22 Zhu, Y.,Hu, L.,Zhou, Y.,Yao, Q.,Liu, L.,Shao, F. 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Crystal structure of Tpa1 from Saccharomyces cerevisiae, a component of the messenger ribonucleoprotein complex Nucleic Acids Res. 2010 38 2099 2110 3A4R 20077568 The crystal structure of SUMO-like domain 2 in Nip45 2009-07-14 2010-02-02 Sekiyama, N.,Arita, K.,Ikeda, Y.,Hashiguchi, K.,Ariyoshi, M.,Tochio, H.,Saitoh, H.,Shirakawa, M. Structural basis for regulation of poly-SUMO chain by a SUMO-like domain of Nip45 Proteins 2009 78 1491 1502 3A4R 20077568 The crystal structure of SUMO-like domain 2 in Nip45 2009-07-14 2010-02-02 Sekiyama, N.,Arita, K.,Ikeda, Y.,Hashiguchi, K.,Ariyoshi, M.,Tochio, H.,Saitoh, H.,Shirakawa, M. Structural basis for regulation of poly-SUMO chain by a SUMO-like domain of Nip45 Proteins 2009 78 1491 1502 3A7I 20124694 Human MST3 kinase in complex with adenine 2009-09-26 2010-02-02 Ko, T.P.,Jeng, W.Y.,Liu, C.I.,Lai, M.D.,Wu, C.L.,Chang, W.J.,Shr, H.L.,Lu, T.J.,Wang, A.H.J. Structures of human MST3 kinase in complex with adenine, ADP and Mn2+. 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Structure and functional characterization of Vibrio parahaemolyticus thermostable direct hemolysin J.Biol.Chem. 2010 285 16267 16274 3GJH Crystal structure of a DNA duplex containing 7,8-dihydropyridol[2,3-d]pyrimidin-2-one 2009-03-09 2010-03-31 Takenaka, A.,Juan, E.C.M.,Shimizu, S.,Haraguchi, T.,Xiao, M.,Kurose, T.,Ohkubo, A.,Sekine, M.,Shibata, T.,Millington, C.L. Insights into the stabilizing contributions of bicyclic cytosine analogues: crystal structures of DNA duplexes containing 7,8-dihydropyridol[2,3-d]pyrimidin-2-one To be Published 0 0 0 0 3GJL crystal structure of a DNA duplex containing 7,8-dihydropyridol[2,3-d]pyrimidin-2-one 2009-03-09 2010-03-31 Takenaka, A.,Juan, E.C.M.,Shimizu, S.,Haraguchi, T.,Xiao, M.,Kurose, T.,Ohkubo, A.,Sekine, M.,Shibata, T.,Millington, C.M.,William, D.M. 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Structural basis for the recognition of Lewis antigens by genogroup I norovirus J.Virol. 2012 86 11138 11150 3UNN 22234877 Monomeric structure of the human MDC1 FHA domain in complex with an MDC1 phospho-T4 peptide 2011-11-16 2012-01-25 Liu, J.,Luo, S.,Zhao, H.,Liao, J.,Li, J.,Yang, C.,Xu, B.,Stern, D.F.,Xu, X.,Ye, K. Structural mechanism of the phosphorylation-dependent dimerization of the MDC1 forkhead-associated domain Nucleic Acids Res. 2012 40 3898 3912 3AUB A simplified BPTI variant stabilized by the A14G and A38V substitutions 2011-02-03 2012-02-08 Islam, M.M.,Kato, A.,Khan, M.M.A.,Noguchi, K.,Yohda, M.,Kidokoro, S.I.,Kuroda, Y. Effect of amino acid mutations of protein's solubility, function and structure characterized using short poly amino acid peptide tags To be Published 0 0 0 0 3AUC A simplified BPTI variant with poly SER (C5S) amino acid tag at the c-terminus 2011-02-03 2012-02-08 Islam, M.M.,Kato, A.,Khan, M.M.A.,Noguchi, K.,Yohda, M.,Kidokoro, S.I.,Kuroda, Y. Effect of amino acid mutations on protein's solubility, function and structure characterized using short poly amino acid peptide tags To be Published 0 0 0 0 3AUE A simplified BPTI variant with poly His amino acid tag (C5H) at the C-terminus 2011-02-03 2012-02-08 Islam, M.M.,Kato, A.,Khan, M.M.A.,Noguchi, K.,Yohda, M.,Kidokoro, S.I.,Kuroda, Y. Effect of amino acid mutations on protein's solubility, function and structure characterized using short poly amino acid peptide tags To be Published 0 0 0 0 3AUI A simplified BPTI variant with poly Glu amino acid tag (C3E) at the C-terminus 2011-02-03 2012-02-08 Islam, M.M.,Kato, A.,Khan, M.M.A.,Noguchi, K.,Yohda, M.,Kidokoro, S.I.,Kuroda, Y. Effect of amino acid mutations on protein's solubility, function and structure characterized using short poly amino acid peptide tags To be Published 0 0 0 0 3AUM 25645104 Crystal structure of OspA mutant 2011-02-10 2012-02-15 Biancalana, M.,Makabe, K.,Yan, S.,Koide, S. Aromatic cluster mutations produce focal modulations of beta-sheet structure. Protein Sci. 2015 24 841 849 3AUU 22804868 Crystal structure of Bacillus megaterium glucose dehydrogenase 4 in complex with D-glucose 2011-02-16 2012-02-22 Nishioka, T.,Yasutake, Y.,Nishiya, Y.,Tamura, T. Structure-guided mutagenesis for the improvement of substrate specificity of Bacillus megaterium glucose 1-dehydrogenase IV Febs J. 2012 279 3264 3275 3AX7 22145797 Bovine Xanthine Oxidase, protease cleaved form 2011-03-30 2012-02-22 Ishikita, H.,Eger, B.T.,Okamoto, K.,Nishino, T.,Pai, E.F. Protein conformational gating of enzymatic activity in xanthine oxidoreductase J.Am.Chem.Soc. 2012 134 999 1009 3AX9 22145797 Bovine xanthine oxidase, protease cleaved form 2011-03-31 2012-02-22 Ishikita, H.,Eger, B.T.,Okamoto, K.,Nishino, T.,Pai, E.F. 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Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures Protein Sci. 2012 21 383 395 3B0N 22238192 Q448K mutant of assimilatory nitrite reductase (Nii3) from tobbaco leaf 2011-06-10 2012-02-22 Nakano, S.,Takahashi, M.,Sakamoto, A.,Morikawa, H.,Katayanagi, K. Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures Protein Sci. 2012 21 383 395 3VL2 22349232 3-isopropylmalate dehydrogenase from Shewanella oneidensis MR-1 at 160 MPa 2011-11-29 2012-02-29 Nagae, T.,Kawamura, T.,Chavas, L.M.G.,Niwa, K.,Hasegawa, M.,Kato, C.,Watanabe, N. 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Embo J. 2012 31 2541 2552 3VOG 22429290 Catalytic domain of the cellobiohydrolase, CcCel6A, from Coprinopsis cinerea 2012-01-24 2012-03-21 Tamura, M.,Miyazaki, T.,Tanaka, Y.,Yoshida, M.,Nishikawa, A.,Tonozuka, T. Comparison of the structural changes in two cellobiohydrolases, CcCel6A and CcCel6C, from Coprinopsis cinerea - a tweezer-like motion in the structure of CcCel6C Febs J. 2012 279 1871 1882 3VOH 22429290 CcCel6A catalytic domain complexed with cellobiose 2012-01-24 2012-03-21 Tamura, M.,Miyazaki, T.,Tanaka, Y.,Yoshida, M.,Nishikawa, A.,Tonozuka, T. Comparison of the structural changes in two cellobiohydrolases, CcCel6A and CcCel6C, from Coprinopsis cinerea - a tweezer-like motion in the structure of CcCel6C Febs J. 2012 279 1871 1882 3VOI 22429290 CcCel6A catalytic domain complexed with p-nitrophenyl beta-D-cellotrioside 2012-01-24 2012-03-21 Tamura, M.,Miyazaki, T.,Tanaka, Y.,Yoshida, M.,Nishikawa, A.,Tonozuka, T. 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Discovery and preclinical profile of teneligliptin (3-[(2S,4S)-4-[4-(3-methyl-1-phenyl-1H-pyrazol-5-yl)piperazin-1-yl]pyrrolidin-2-ylcarbonyl]thiazolidine): A highly potent, selective, long-lasting and orally active dipeptidyl peptidase IV inhibitor for the treatment of type 2 diabetes Bioorg.Med.Chem. 2012 20 5705 5719 3VXI Dye-decolorizing peroxidase (DyP) complex with ascorbic acid 2012-09-14 2012-11-07 Sugano, Y.,Yoshida, T.,Tsuge, H. Dye-decolorizing peroxidase (DyP) complex with ascorbic acid to be published 0 0 0 0 3VXJ Dye-decolorizing peroxidase (DyP) complex with 2,6-dimethoxyphenol 2012-09-14 2012-11-07 Sugano, Y.,Yoshida, T.,Tsuge, H. 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Catalatic Implication Guided by Structure, Kinetics and Theoretical Studies on Ser305Thr and Arg409Leu Variants of HmKatG To be Published 0 0 0 0 3VLI Crystal Structure Analysis of the Cyanide Arg409Leu Variant KatG from HALOARCULA MARISMORTUI 2011-12-01 2012-12-05 Sato, T.,Higuchi, W.,Yoshimatsu, K.,Fujiwara, T. Crystal Structures and Peroxidatic Function of Cyanide Arg409Leu Variant and its Complexes with o-Dianisidine in KatG from HALOARCULA MARISMORTUI To be Published 0 0 0 0 3VLJ Crystal Structure Analysis of the Cyanide Arg409Leu Variant Complexes with o-Dianisidine in KatG from HALOARCULA MARISMORTUI 2011-12-01 2012-12-05 Sato, T.,Higuchi, W.,Yoshimatsu, K.,Fujiwara, T. 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Elucidations of the catalytic cycle of NADH-cytochrome b5 reductase by X-ray crystallography: new insights into regulation of efficient electron transfer J.Mol.Biol. 2013 425 4295 4306 3W2H 23831226 Crystal structure of oxidation intermediate (1min) of NADH-cytochrome b5 reductase from pig liver 2012-11-28 2013-07-17 Yamada, M.,Tamada, T.,Takeda, K.,Matsumoto, F.,Ohno, H.,Kosugi, M.,Takaba, K.,Shoyama, Y.,Kimura, S.,Kuroki, R.,Miki, K. Elucidations of the catalytic cycle of NADH-cytochrome b5 reductase by X-ray crystallography: new insights into regulation of efficient electron transfer J.Mol.Biol. 2013 425 4295 4306 3W7W 23826932 Crystal structure of E. coli YgjK E727A complexed with 2-O-alpha-D-glucopyranosyl-alpha-D-galactopyranose 2013-03-08 2013-07-17 Miyazaki, T.,Ichikawa, M.,Yokoi, G.,Kitaoka, M.,Mori, H.,Kitano, Y.,Nishikawa, A.,Tonozuka, T. Structure of a bacterial glycoside hydrolase family 63 enzyme in complex with its glycosynthase product, and insights into the substrate specificity. Febs J. 2013 280 4560 4571 3W7X 23826932 Crystal structure of E. coli YgjK D324N complexed with melibiose 2013-03-08 2013-07-17 Miyazaki, T.,Ichikawa, M.,Yokoi, G.,Kitaoka, M.,Mori, H.,Kitano, Y.,Nishikawa, A.,Tonozuka, T. Structure of a bacterial glycoside hydrolase family 63 enzyme in complex with its glycosynthase product, and insights into the substrate specificity. Febs J. 2013 280 4560 4571 4GQY 23664870 Crystal structure of CBSX2 in complex with AMP 2012-08-24 2013-07-24 Jeong, B.C.,Park, S.H.,Yoo, K.S.,Shin, J.S.,Song, H.K. Change in single cystathionine beta-synthase domain-containing protein from a bent to flat conformation upon adenosine monophosphate binding J.Struct.Biol. 2013 183 40 46 4KXF 23765277 Crystal structure of NLRC4 reveals its autoinhibition mechanism 2013-05-25 2013-07-24 Hu, Z.,Yan, C.,Liu, P.,Huang, Z.,Ma, R.,Zhang, C.,Wang, R.,Zhang, Y.,Martinon, F.,Miao, D.,Deng, H.,Wang, J.,Chang, J.,Chai, J. Crystal structure of NLRC4 reveals its autoinhibition mechanism Science 2013 341 172 175 3VXG 23828603 Crystal structure of conjugated polyketone reductase C2 from Candida Parapsilosis 2012-09-13 2013-08-07 Qin, H.-M.,Yamamura, A.,Miyakawa, T.,Kataoka, M.,Nagai, T.,Kitamura, N.,Urano, N.,Maruoka, S.,Ohtsuka, J.,Nagata, K.,Shimizu, S.,Tanokura, M. Structure of conjugated polyketone reductase from Candida parapsilosis IFO 0708 reveals conformational changes for substrate recognition upon NADPH binding Appl.Microbiol.Biotechnol. 2014 98 243 249 3W81 23959878 Human alpha-l-iduronidase 2013-03-11 2013-08-21 Maita, N.,Tsukimura, T.,Taniguchi, T.,Saito, S.,Ohno, K.,Taniguchi, H.,Sakuraba, H. Human alpha-L-iduronidase uses its own N-glycan as a substrate-binding and catalytic module Proc.Natl.Acad.Sci.USA 2013 110 14628 14633 3WG6 23852710 Crystal structure of conjugated polyketone reductase C1 from Candida parapsilosis complexed with NADPH 2013-07-28 2013-08-21 Qin, H.M.,Yamamura, A.,Miyakawa, T.,Kataoka, M.,Maruoka, S.,Ohtsuka, J.,Nagata, K.,Shimizu, S.,Tanokura, M. Crystal structure of conjugated polyketone reductase (CPR-C1) from Candida parapsilosis IFO 0708 complexed with NADPH. Proteins 2013 81 2059 2063 3W96 24251097 Crystal Structure of Human Nucleosome Core Particle lacking H2A N-terminal region 2013-04-01 2013-08-28 Iwasaki, W.,Miya, Y.,Horikoshi, N.,Osakabe, A.,Taguchi, H.,Tachiwana, H.,Shibata, T.,Kagawa, W.,Kurumizaka, H. Contribution of histone N-terminal tails to the structure and stability of nucleosomes FEBS Open Bio 2013 3 363 369 3W97 24251097 Crystal Structure of Human Nucleosome Core Particle lacking H2B N-terminal region 2013-04-01 2013-08-28 Iwasaki, W.,Miya, Y.,Horikoshi, N.,Osakabe, A.,Taguchi, H.,Tachiwana, H.,Shibata, T.,Kagawa, W.,Kurumizaka, H. Contribution of histone N-terminal tails to the structure and stability of nucleosomes FEBS Open Bio 2013 3 363 369 3W98 24251097 Crystal Structure of Human Nucleosome Core Particle lacking H3.1 N-terminal region 2013-04-01 2013-08-28 Iwasaki, W.,Miya, Y.,Horikoshi, N.,Osakabe, A.,Taguchi, H.,Tachiwana, H.,Shibata, T.,Kagawa, W.,Kurumizaka, H. Contribution of histone N-terminal tails to the structure and stability of nucleosomes FEBS Open Bio 2013 3 363 369 3W99 24251097 Crystal Structure of Human Nucleosome Core Particle lacking H4 N-terminal region 2013-04-01 2013-08-28 Iwasaki, W.,Miya, Y.,Horikoshi, N.,Osakabe, A.,Taguchi, H.,Tachiwana, H.,Shibata, T.,Kagawa, W.,Kurumizaka, H. Contribution of histone N-terminal tails to the structure and stability of nucleosomes FEBS Open Bio 2013 3 363 369 3WD7 Type III polyketide synthase 2013-06-10 2013-09-04 Mori, T.,Shimokawa, Y.,Matsui, T.,Kinjo, K.,Kato, R.,Noguchi, H.,Sugio, S.,Morita, H.,Abe, I. Cloning, characterization, and crystal structure analysis of novel type III polyketide synthases from Citrus microcarpa To be Published 0 0 0 0 3WD0 24043811 Serratia marcescens Chitinase B, tetragonal form 2013-06-06 2013-09-18 Hirose, T.,Maita, N.,Gouda, H.,Koseki, J.,Yamamoto, T.,Sugawara, A.,Nakano, H.,Hirono, S.,Shiomi, K.,Watanabe, T.,Taniguchi, H.,Sharpless, K.B.,Omura, S.,Sunazuka, T. Observation of the controlled assembly of preclick components in the in situ click chemistry generation of a chitinase inhibitor Proc.Natl.Acad.Sci.USA 2013 110 15892 15897 3WD4 24043811 Serratia marcescens Chitinase B complexed with azide inhibitor and quinoline compound 2013-06-06 2013-09-18 Hirose, T.,Maita, N.,Gouda, H.,Koseki, J.,Yamamoto, T.,Sugawara, A.,Nakano, H.,Hirono, S.,Shiomi, K.,Watanabe, T.,Taniguchi, H.,Sharpless, K.B.,Omura, S.,Sunazuka, T. Observation of the controlled assembly of preclick components in the in situ click chemistry generation of a chitinase inhibitor Proc.Natl.Acad.Sci.USA 2013 110 15892 15897 4H2N Crystal structure of MHPCO, Y270F mutant 2012-09-12 2013-09-18 Kobayashi, J.,Yoshida, H.,Mikami, B.,Hayashi, H.,Kamitori, S.,Yagi, T. Crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase To be Published 0 0 0 0 3VYK 24108122 Crystal structure of C-type lectin domain of murine dendritic cell inhibitory receptor 2 in complex with N-glycan 2012-09-26 2013-10-02 Nagae, M.,Yamanaka, K.,Hanashima, S.,Ikeda, A.,Morita-Matsumoto, K.,Satoh, T.,Matsumoto, N.,Yamamoto, K.,Yamaguchi, Y. Recognition of Bisecting N-Acetylglucosamine: STRUCTURAL BASIS FOR ASYMMETRIC INTERACTION WITH THE MOUSE LECTIN DENDRITIC CELL INHIBITORY RECEPTOR 2 J.Biol.Chem. 2013 288 33598 33610 3WCK 24043132 Crystal structure of monomeric photosensitizing fluorescent protein, Supernova 2013-05-27 2013-10-02 Takemoto, K.,Matsuda, T.,Sakai, N.,Fu, D.,Noda, M.,Uchiyama, S.,Kotera, I.,Arai, Y.,Horiuchi, M.,Fukui, K.,Ayabe, T.,Inagaki, F.,Suzuki, H.,Nagai, T. SuperNova, a monomeric photosensitizing fluorescent protein for chromophore-assisted light inactivation Sci Rep 2013 3 2629 2629 4K3A 18802694 The structure of a glycoside hydrolase family 81 endo-[beta]-1,3-glucanase 2013-04-10 2013-10-02 Zhou, P.,Chen, Z.Z.,Yan, Q.J.,Yang, S.Q.,Hilgenfeld, R.,Jiang, Z.Q. The structure of a glycoside hydrolase family 81 endo-[beta]-1,3-glucanase Acta Crystallogr.,Sect.D 2013 69 2027 2038 3WFZ 24065834 Crystal structure of Galacto-N-Biose/Lacto-N-Biose I Phosphorylase C236Y Mutant 2013-07-25 2013-10-09 Koyama, Y.,Hidaka, M.,Nishimoto, M.,Kitaoka, M. Directed evolution to enhance thermostability of galacto-N-biose/lacto-N-biose I phosphorylase. Protein Eng.Des.Sel. 2013 26 755 761 3VZE 24790092 Crystal structure of human pancreatic secretory protein ZG16p with alpha1,3-mannobiose 2012-10-11 2013-10-16 Kanagawa, M.,Liu, Y.,Hanashima, S.,Ikeda, A.,Chai, W.,Nakano, Y.,Kojima-Aikawa, K.,Feizi, T.,Yamaguchi, Y. Structural Basis for Multiple Sugar Recognition of Jacalin-related Human ZG16p Lectin J.Biol.Chem. 2014 289 16954 16965 3WD9 24094436 Crystal structure of phosphodiesterase 4B in complex with compound 10f 2013-06-11 2013-10-23 Goto, T.,Shiina, A.,Yoshino, T.,Mizukami, K.,Hirahara, K.,Suzuki, O.,Sogawa, Y.,Takahashi, T.,Mikkaichi, T.,Nakao, N.,Takahashi, M.,Hasegawa, M.,Sasaki, S. Synthesis and biological evaluation of 5-carbamoyl-2-phenylpyrimidine derivatives as novel and potent PDE4 inhibitors Bioorg.Med.Chem. 2013 21 7025 7037 4KP0 24121339 Crystal Structure of the human Chymase with TJK002 2013-05-12 2013-10-30 Matsumoto, Y.,Kakuda, S.,Koizumi, M.,Mizuno, T.,Muroga, Y.,Kawamura, T.,Takimoto-Kamimura, M. Crystal structure of a complex of human chymase with its benzimidazole derived inhibitor J.SYNCHROTRON RADIAT. 2013 20 914 918 4NC5 24591206 Human sialidase 2 in complex with 2,3-difluorosialic acid (covalent intermediate) 2013-10-24 2013-11-06 Buchini, S.,Gallat, F.X.,Greig, I.R.,Kim, J.H.,Wakatsuki, S.,Chavas, L.M.,Withers, S.G. Tuning mechanism-based inactivators of neuraminidases: mechanistic and structural insights. Angew.Chem.Int.Ed.Engl. 2014 53 3382 3386 3VYG Crystal structure of Thiocyanate hydrolase mutant R136W 2012-09-25 2013-11-13 Yamanaka, Y.,Sato, M.,Arakawa, T.,Namima, S.,Hori, S.,Ohtaki, A.,Noguchi, K.,Katayama, Y.,Yohda, M.,Odaka, M. Effects of argnine residue around the substrate pocket on the substrate specificity of thiocyanate hydrolase To be published 0 0 0 0 3W1A Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with 5-halogenated orotate derivatives 2012-11-13 2013-11-13 Inaoka, D.K.,Iida, M.,Tabuchi, T.,Lee, N.,Matsuoka, S.,Shiba, T.,Sakamoto, K.,Suzuki, S.,Balogun, E.O.,Nara, T.,Aoki, T.,Inoue, M.,Honma, T.,Tanaka, A.,Harada, S.,Kita, K. Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with 5-halogenated orotate derivatives To be Published 0 0 0 0 3W1L Crystal structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with 5-chloroorotate 2012-11-16 2013-11-20 Inaoka, D.K.,Iida, M.,Tabuchi, T.,Lee, N.,Matsuoka, S.,Shiba, T.,Sakamoto, K.,Suzuki, S.,Balogun, E.O.,Nara, T.,Aoki, T.,Inoue, M.,Honma, T.,Tanaka, A.,Harada, S.,Kita, K. Crystal structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with 5-chloroorotate TO BE PUBLISHED 0 0 0 0 3W1P Crystal structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with 5-ethenyl-2,6-dioxo-1,2,3,6-tetrahydropyrimidine-4-carboxylic acid 2012-11-19 2013-11-20 Inaoka, D.K.,Iida, M.,Tabuchi, T.,Lee, N.,Matsuoka, S.,Shiba, T.,Sakamoto, K.,Suzuki, S.,Balogun, E.O.,Nara, T.,Aoki, T.,Inoue, M.,Honma, T.,Tanaka, A.,Harada, S.,Kita, K. Crystal structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with 5-ethenyl-2,6-dioxo-1,2,3,6-tetrahydropyrimidine-4-carboxylic acid To be Published 0 0 0 0 3W1Q Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with NL-2 2012-11-20 2013-11-20 Inaoka, D.K.,Iida, M.,Tabuchi, T.,Lee, N.,Matsuoka, S.,Shiba, T.,Sakamoto, K.,Suzuki, S.,Balogun, E.O.,Nara, T.,Aoki, T.,Inoue, M.,Honma, T.,Tanaka, A.,Harada, S.,Kita, K. Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with NL-2 To be Published 0 0 0 0 3WIY 24215352 Crystal structure of Mcl-1 in complex with compound 10 2013-09-26 2013-11-27 Tanaka, Y.,Aikawa, K.,Nishida, G.,Homma, M.,Sogabe, S.,Igaki, S.,Hayano, Y.,Sameshima, T.,Miyahisa, I.,Kawamoto, T.,Tawada, M.,Imai, Y.,Inazuka, M.,Cho, N.,Imaeda, Y.,Ishikawa, T. Discovery of potent Mcl-1/Bcl-xL dual inhibitors by using a hybridization strategy based on structural analysis of target proteins. J.Med.Chem. 2013 56 9635 9645 3W2K Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with MII-3-165 2012-11-29 2013-12-04 Inaoka, D.K.,Iida, M.,Tabuchi, T.,Lee, N.,Matsuoka, S.,Shiba, T.,Sakamoto, K.,Suzuki, S.,Balogun, E.O.,Nara, T.,Aoki, T.,Inoue, M.,Honma, T.,Tanaka, A.,Harada, S.,Kita, K. Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with MII-3-165 To be Published 0 0 0 0 3W2L Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with MII-3-169 2012-11-29 2013-12-04 Inaoka, D.K.,Iida, M.,Tabuchi, T.,Lee, N.,Matsuoka, S.,Shiba, T.,Sakamoto, K.,Suzuki, S.,Balogun, E.O.,Nara, T.,Aoki, T.,Inoue, M.,Honma, T.,Tanaka, A.,Harada, S.,Kita, K. Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with MII-3-169 To be Published 0 0 0 0 3W2M Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with MII-3-183 2012-11-30 2013-12-04 Inaoka, D.K.,Iida, M.,Tabuchi, T.,Lee, N.,Matsuoka, S.,Shiba, T.,Sakamoto, K.,Suzuki, S.,Balogun, E.O.,Nara, T.,Aoki, T.,Inoue, M.,Honma, T.,Tanaka, A.,Harada, S.,Kita, K. Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with MII-3-183. To be Published 0 0 0 0 3W2N Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with MII-3-185 2012-12-03 2013-12-04 Inaoka, D.K.,Iida, M.,Tabuchi, T.,Lee, N.,Matsuoka, S.,Shiba, T.,Sakamoto, K.,Suzuki, S.,Balogun, E.O.,Nara, T.,Aoki, T.,Inoue, M.,Honma, T.,Tanaka, A.,Harada, S.,Kita, K. Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with MII-3-185 To be Published 0 0 0 0 3W2X Crystal structure of DNA uridine endonuclease Mth212 2012-12-06 2013-12-11 Tabata, N.,Shida, T.,Arai, R. Crystal structure of DNA uridine endonuclease Mth212 To be Published 0 0 0 0 3WJP 24297906 Crystal structure of the HypE CA form 2013-10-14 2013-12-18 Tominaga, T.,Watanabe, S.,Matsumi, R.,Atomi, H.,Imanaka, T.,Miki, K. Crystal structures of the carbamoylated and cyanated forms of HypE for [NiFe] hydrogenase maturation Proc.Natl.Acad.Sci.USA 2013 110 20485 20490 3WJQ 24297906 Crystal structure of the HypE CN form 2013-10-14 2013-12-18 Tominaga, T.,Watanabe, S.,Matsumi, R.,Atomi, H.,Imanaka, T.,Miki, K. Crystal structures of the carbamoylated and cyanated forms of HypE for [NiFe] hydrogenase maturation Proc.Natl.Acad.Sci.USA 2013 110 20485 20490 3WKI 24362032 Crystal structure of cellobiose 2-epimerase in complex with cellobiitol 2013-10-21 2013-12-25 Fujiwara, T.,Saburi, W.,Matsui, H.,Mori, H.,Yao, M. Structural Insights into the Epimerization of beta-1,4-Linked Oligosaccharides Catalyzed by Cellobiose 2-Epimerase, the Sole Enzyme Epimerizing Non-anomeric Hydroxyl Groups of Unmodified Sugars J.Biol.Chem. 2014 289 3405 3415 4NCS 24591206 Human sialidase 2 in complex with 2,3-difluorosialic acid (covalent intermediate) 2013-10-25 2013-12-25 Buchini, S.,Gallat, F.X.,Greig, I.R.,Kim, J.H.,Wakatsuki, S.,Chavas, L.M.,Withers, S.G. Tuning mechanism-based inactivators of neuraminidases: mechanistic and structural insights. Angew.Chem.Int.Ed.Engl. 2014 53 3382 3386 3WEC 24269679 Structure of P450 RauA (CYP1050A1) complexed with a biosynthetic intermediate of aurachin RE 2013-07-03 2014-01-01 Yasutake, Y.,Kitagawa, W.,Hata, M.,Nishioka, T.,Ozaki, T.,Nishiyama, M.,Kuzuyama, T.,Tamura, T. Structure of the quinoline N-hydroxylating cytochrome P450 RauA, an essential enzyme that confers antibiotic activity on aurachin alkaloids Febs Lett. 2014 588 105 110 3WHU 24498414 Crystal structure of ERGIC-53/MCFD2, Calcium/Man2-bound form 2013-08-30 2014-01-15 Satoh, T.,Suzuki, K.,Yamaguchi, T.,Kato, K. Structural Basis for Disparate Sugar-Binding Specificities in the Homologous Cargo Receptors ERGIC-53 and VIP36 Plos One 2014 9 0 0 4J7A 23999296 Crystal Structure of Est25 - a Bacterial Homolog of Hormone-Sensitive Lipase from a Metagenomic Library 2013-02-13 2014-01-15 Ngo, T.D.,Ryu, B.H.,Ju, H.,Jang, E.,Park, K.,Kim, K.K.,Kim, D.H. Structural and functional analyses of a bacterial homologue of hormone-sensitive lipase from a metagenomic library Acta Crystallogr.,Sect.D 2014 69 1726 1737 4ITE 24900728 Crystal structure of the human vitamin D receptor ligand binding domain complexed with 1alpha,25-Dihydroxy-2alpha-[2-(2H-tetrazol-2-yl)ethyl]vitamin D3 2013-01-18 2014-01-22 Matsuo, M.,Hasegawa, A.,Takano, M.,Saito, H.,Kakuda, S.,Chida, T.,Takagi, K.,Ochiai, E.,Horie, K.,Harada, Y.,Takimoto-Kamimura, M.,Takenouchi, K.,Sawada, D.,Kittaka, A. Synthesis of 2 alpha-heteroarylalkyl active vitamin d3 with therapeutic effect on enhancing bone mineral density in vivo ACS MED.CHEM.LETT. 2013 4 671 674 4ITF 24900728 Crystal structure of the human vitamin D receptor ligand binding domain complexed with 1alpha,25-Dihydroxy-2alpha-[2-(1H-tetrazole-1-yl)ethyl]vitamin D3 2013-01-18 2014-01-22 Matsuo, M.,Hasegawa, A.,Takano, M.,Saito, H.,Kakuda, S.,Chida, T.,Takagi, K.,Ochiai, E.,Horie, K.,Harada, Y.,Takimoto-Kamimura, M.,Takenouchi, K.,Sawada, D.,Kittaka, A. Synthesis of 2 alpha-heteroarylalkyl active vitamin d3 with therapeutic effect on enhancing bone mineral density in vivo ACS MED.CHEM.LETT. 2013 4 671 674 3W5G Crystal structure of tomato beta-galactosidase 4 in complex with galactose 2013-01-29 2014-01-29 Eda, M.,Tada, T. Crystal structure of tomato beta-galactosidase 4 in complex with galactose To be Published 0 0 0 0 3WEA 24567405 Crystal structure of a Niemann-Pick type C2 protein from Japanese carpenter ant 2013-07-02 2014-02-05 Ishida, Y.,Tsuchiya, W.,Fujii, T.,Fujimoto, Z.,Miyazawa, M.,Ishibashi, J.,Matsuyama, S.,Ishikawa, Y.,Yamazaki, T. Niemann-Pick type C2 protein mediating chemical communication in the worker ant Proc.Natl.Acad.Sci.USA 2014 111 3847 3852 3WNO 24616103 D308A mutant of Bacillus circulans T-3040 cycloisomaltooligosaccharide glucanotransferase complexed with cycloisomaltooctaose 2013-12-10 2014-02-05 Suzuki, N.,Fujimoto, Z.,Kim, Y.M.,Momma, M.,Kishine, N.,Suzuki, R.,Suzuki, S.,Kitamura, S.,Kobayashi, M.,Kimura, A.,Funane, K. Structural elucidation of the cyclization mechanism of alpha-1,6-glucan by Bacillus circulans T-3040 cycloisomaltooligosaccharide glucanotransferase. J.Biol.Chem. 2014 289 12040 12051 3WNP 25649478 D308A, F268V, D469Y, A513V, and Y515S quintuple mutant of Bacillus circulans T-3040 cycloisomaltooligosaccharide glucanotransferase complexed with isomaltoundecaose 2013-12-10 2014-02-05 Suzuki, R.,Suzuki, N.,Fujimoto, Z.,Momma, M.,Kimura, K.,Kitamura, S.,Kimura, A.,Funane, K. Molecular engineering of cycloisomaltooligosaccharide glucanotransferase from Bacillus circulans T-3040: structural determinants for the reaction product size and reactivity. Biochem.J. 2015 467 259 270 4J2R 24419622 Middle domain of influenza A virus RNA-dependent polymerase PB2 2013-02-05 2014-02-05 Tsurumura, T.,Qiu, H.,Yoshida, T.,Tsumori, Y.,Tsuge, H. Crystallization and preliminary X-ray diffraction studies of a surface mutant of the middle domain of PB2 from human influenza A (H1N1) virus ACTA CRYSTALLOGR.,SECT.F 2014 70 72 75 4LSY 24060809 Crystal structure of copper-bound L66S mutant toxin from Helicobacter pylori 2013-07-23 2014-02-05 Pathak, C.,Im, H.,Yang, Y.J.,Yoon, H.J.,Kim, H.M.,Kwon, A.R.,Lee, B.J. Crystal structure of apo and copper bound HP0894 toxin from Helicobacter pylori 26695 and insight into mRNase activity Biochim.Biophys.Acta 2013 1834 2579 2590 3W5S Crystal Structure of Maleylacetate Reductase from Rhizobium sp. strain MTP-10005 2013-02-06 2014-02-12 Fujii, T.,Ogawa, A.,Goda, Y.,Yamauchi, T.,Yoshida, M.,Oikawa, T.,Hata, Y. Crystal Structure of Maleylacetate Reductase from Rhizobium sp. strain MTP-10005 To be Published 0 0 0 0 3W78 24531489 Crystal Structure of azoreductase AzrC in complex with NAD(P)-inhibitor Cibacron Blue 2013-02-27 2014-02-12 Yu, J.,Ogata, D.,Gai, Z.,Taguchi, S.,Tanaka, I.,Ooi, T.,Yao, M. Structures of AzrA and of AzrC complexed with substrate or inhibitor: insight into substrate specificity and catalytic mechanism. Acta Crystallogr.,Sect.D 2014 70 553 564 3W79 24531489 Crystal Structure of azoreductase AzrC in complex with sulfone-modified azo dye Orange I 2013-02-27 2014-02-12 Yu, J.,Ogata, D.,Gai, Z.,Taguchi, S.,Tanaka, I.,Ooi, T.,Yao, M. Structures of AzrA and of AzrC complexed with substrate or inhibitor: insight into substrate specificity and catalytic mechanism. Acta Crystallogr.,Sect.D 2014 70 553 564 3WEH 24531458 Crystal structure of the human squalene synthase in complex with presqualene pyrophosphate 2013-07-07 2014-02-12 Liu, C.I.,Jeng, W.Y.,Chang, W.J.,Shih, M.F.,Ko, T.P.,Wang, A.H.J. Structural insights into the catalytic mechanism of human squalene synthase. 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High Resolution Crystal Structure of the Grb2 SH2 Domain with a Phosphopeptide Derived from CD28 Plos One 2013 8 0 0 3WO9 24465760 Crystal structure of the lamprey variable lymphocyte receptor C 2013-12-20 2014-03-05 Kanda, R.,Sutoh, Y.,Kasamatsu, J.,Maenaka, K.,Kasahara, M.,Ose, T. Crystal structure of the lamprey variable lymphocyte receptor C reveals an unusual feature in its N-terminal capping module. Plos One 2014 9 0 0 4L26 24478025 Crystal structure of DNA duplex containing consecutive T-T mispairs (Br-derivative) 2013-06-04 2014-03-05 Kondo, J.,Yamada, T.,Hirose, C.,Okamoto, I.,Tanaka, Y.,Ono, A. 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Inhibitory Activities of Propolis and Its Promising Component, Caffeic Acid Phenethyl Ester, against Amyloidogenesis of Human Transthyretin J.Med.Chem. 2014 57 8928 8935 4PWJ 25314129 Crystal structure of V30M mutant human transthyretin complexed with nordihydroguaiaretic acid 2014-03-20 2014-11-26 Yokoyama, T.,Kosaka, Y.,Mizuguchi, M. Inhibitory Activities of Propolis and Its Promising Component, Caffeic Acid Phenethyl Ester, against Amyloidogenesis of Human Transthyretin J.Med.Chem. 2014 57 8928 8935 4PWK 25314129 Crystal structure of V30M mutant human transthyretin complexed with dihydroguaiaretic acid 2014-03-20 2014-11-26 Yokoyama, T.,Kosaka, Y.,Mizuguchi, M. Inhibitory Activities of Propolis and Its Promising Component, Caffeic Acid Phenethyl Ester, against Amyloidogenesis of Human Transthyretin J.Med.Chem. 2014 57 8928 8935 4QRF 25314129 Crystal structure of V30M mutant human transthyretin complexed with caffeic acid phenethyl ester 2014-06-30 2014-11-26 Yokoyama, T.,Kosaka, Y.,Mizuguchi, M. Inhibitory Activities of Propolis and Its Promising Component, Caffeic Acid Phenethyl Ester, against Amyloidogenesis of Human Transthyretin J.Med.Chem. 2014 57 8928 8935 3WZS 25471383 Crystal structure of Trx3 domain of UGGT (detergent-bound form) 2014-10-03 2014-12-03 Zhu, T.,Satoh, T.,Kato, K. Structural insight into substrate recognition by the endoplasmic reticulum folding-sensor enzyme: crystal structure of third thioredoxin-like domain of UDP-glucose:glycoprotein glucosyltransferase Sci Rep 2014 4 7322 7322 4N9N Crystal Structure of Saccharomyces cerevisiae Upc2 Transcription Factor fused with T4 Lysozyme 2013-10-21 2014-12-03 Yang, H.,Tong, J.,Ha, S.,Eom, S.H.,Im, Y.J. Structural mechanism of ergosterol regulation by fungal sterol nuclear receptor Upc2 To be Published 0 0 0 0 3WLX Crystal structure of low-specificity L-threonine aldolase from Escherichia coli 2013-11-15 2014-12-17 Qin, H.-M.,Imai, F.L.,Miyakawa, T.,Kataoka, M.,Okai, M.,Ohtsuka, J.,Hou, F.,Nagata, K.,Shimizu, S.,Tanokura, M. Structure analysis of L-threonine aldolase from Escherichia coli unravels the low-specificity and thermostability To be Published 0 0 0 0 3WO5 Crystal structure of S147Q of Rv2613c from Mycobacterium tuberculosis 2013-12-20 2014-12-24 Mori, S.,Wachino, J.,Kim, H.,Rimbara, E.,Arakawa, Y.,Shibayama, K. Role of Ser-147 and Ala-149 in catalytic activity of diadenosine tetraphosphate phosphorylase from Mycobacterium tuberculosis H37Rv To be Published 0 0 0 0 3WXL 25315291 Crystal structure of trypanosoma brucei gambiense glycerol kinase complex with adp, mg2+, and glycerol 2014-08-01 2014-12-24 Balogun, E.O.,Inaoka, D.K.,Shiba, T.,Kido, Y.,Tsuge, C.,Nara, T.,Aoki, T.,Honma, T.,Tanaka, A.,Inoue, M.,Matsuoka, S.,Michels, P.A.,Kita, K.,Harada, S. Molecular basis for the reverse reaction of African human trypanosomes glycerol kinase. Mol.Microbiol. 2014 94 1315 1329 4WFJ 25492421 Crystal structure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-bound state at 1.75 angstrom resolution 2014-09-15 2014-12-24 Miyakawa, T.,Mizushima, H.,Ohtsuka, J.,Oda, M.,Kawai, F.,Tanokura, M. Structural basis for the Ca(2+)-enhanced thermostability and activity of PET-degrading cutinase-like enzyme from Saccharomonospora viridis AHK190. Appl.Microbiol.Biotechnol. 2015 99 4297 4307 4WFK 25492421 Crystal structure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-bound state at 2.35 angstrom resolution 2014-09-15 2014-12-24 Miyakawa, T.,Mizushima, H.,Ohtsuka, J.,Oda, M.,Kawai, F.,Tanokura, M. Structural basis for the Ca(2+)-enhanced thermostability and activity of PET-degrading cutinase-like enzyme from Saccharomonospora viridis AHK190. Appl.Microbiol.Biotechnol. 2015 99 4297 4307 3WOC 25568322 Crystal structure of a prostate-specific WGA16 glycoprotein lectin, form II 2013-12-26 2014-12-31 Garenaux, E.,Kanagawa, M.,Tsuchiyama, T.,Hori, K.,Kanazawa, T.,Goshima, A.,Chiba, M.,Yasue, H.,Ikeda, A.,Yamaguchi, Y.,Sato, C.,Kitajima, K. Discovery, Primary, and Crystal Structures and Capacitation-related Properties of a Prostate-derived Heparin-binding Protein WGA16 from Boar Sperm J.Biol.Chem. 2015 290 5484 5501 3WMQ 26022515 Crystal structure of the complex between SLL-2 and GalNAc. 2013-11-22 2015-01-14 Kita, A.,Jimbo, M.,Sakai, R.,Morimoto, Y.,Miki, K. Crystal structure of a symbiosis-related lectin from octocoral. Glycobiology 2015 25 1016 1023 3WXZ 25564614 The structure of the I375F mutant of CsyB 2014-08-13 2015-01-14 Mori, T.,Yang, D.,Matsui, T.,Hashimoto, M.,Morita, H.,Fujii, I.,Abe, I. 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Structure of a highly acidic beta-lactamase from the moderate halophile Chromohalobacter sp. 560 and the discovery of a Cs(+)-selective binding site Acta Crystallogr.,Sect.D 2015 71 541 554 4P6A 25403811 Crystal structure of a potent anti-HIV lectin actinohivin in complex with alpha-1,2-mannotriose 2014-03-23 2015-03-04 Zhang, F.,Hoque, M.M.,Jiang, J.,Suzuki, K.,Tsunoda, M.,Takeda, Y.,Ito, Y.,Kawai, G.,Tanaka, H.,Takenaka, A. The characteristic structure of anti-HIV actinohivin in complex with three HMTG D1 chains of HIV-gp120. Chembiochem 2014 15 2766 2773 4TSP 25716479 Crystal structure of FraC with DHPC bound (crystal form II) 2014-06-19 2015-03-04 Tanaka, K.,Caaveiro, J.M.M.,Morante, K.,Gonzalez-Manas, J.M.,Tsumoto, K. Structural basis for self-assembly of a cytolytic pore lined by protein and lipid Nat Commun 2015 6 6337 6337 4PB3 25715785 D-threo-3-hydroxyaspartate dehydratase H351A mutant 2014-04-11 2015-03-11 Matsumoto, Y.,Yasutake, Y.,Takeda, Y.,Tamura, T.,Yokota, A.,Wada, M. Structural insights into the substrate stereospecificity of D-threo-3-hydroxyaspartate dehydratase from Delftia sp. HT23: a useful enzyme for the synthesis of optically pure L-threo- and D-erythro-3-hydroxyaspartate. Appl.Microbiol.Biotechnol. 2015 99 7137 7150 4PB4 25715785 D-threo-3-hydroxyaspartate dehydratase H351A mutant complexed with 2-amino maleic acid 2014-04-11 2015-03-11 Matsumoto, Y.,Yasutake, Y.,Takeda, Y.,Tamura, T.,Yokota, A.,Wada, M. Structural insights into the substrate stereospecificity of D-threo-3-hydroxyaspartate dehydratase from Delftia sp. HT23: a useful enzyme for the synthesis of optically pure L-threo- and D-erythro-3-hydroxyaspartate. Appl.Microbiol.Biotechnol. 2015 99 7137 7150 4PB5 25715785 D-threo-3-hydroxyaspartate dehydratase H351A mutant complexed with L-erythro-3-hydroxyaspartate 2014-04-11 2015-03-11 Matsumoto, Y.,Yasutake, Y.,Takeda, Y.,Tamura, T.,Yokota, A.,Wada, M. Structural insights into the substrate stereospecificity of D-threo-3-hydroxyaspartate dehydratase from Delftia sp. HT23: a useful enzyme for the synthesis of optically pure L-threo- and D-erythro-3-hydroxyaspartate. Appl.Microbiol.Biotechnol. 2015 99 7137 7150 4RTH 25704164 The crystal structure of PsbP from Zea mays 2014-11-15 2015-03-11 Cao, P.,Xie, Y.,Li, M.,Pan, X.,Zhang, H.,Zhao, X.,Su, X.,Cheng, T.,Chang, W. Crystal structure analysis of extrinsic PsbP protein of photosystem II reveals a manganese-induced conformational change. Mol Plant 2015 8 664 666 4TQ0 25484072 Crystal structure of human ATG5-ATG16N69 2014-06-10 2015-03-11 Kim, J.H.,Hong, S.B.,Lee, J.K.,Han, S.,Roh, K.H.,Lee, K.E.,Kim, Y.K.,Choi, E.J.,Song, H.K. Insights into autophagosome maturation revealed by the structures of ATG5 with its interacting partners Autophagy 2015 11 75 87 4TQ1 25484072 Crystal structure of human ATG5-TECAIR 2014-06-10 2015-03-11 Kim, J.H.,Hong, S.B.,Lee, J.K.,Han, S.,Roh, K.H.,Lee, K.E.,Kim, Y.K.,Choi, E.J.,Song, H.K. Insights into autophagosome maturation revealed by the structures of ATG5 with its interacting partners Autophagy 2015 11 75 87 4WVA 25712767 Crystal structure of GH63 mannosylglycerate hydrolase from Thermus thermophilus HB8 in complex with Tris 2014-11-05 2015-03-11 Miyazaki, T.,Ichikawa, M.,Iino, H.,Nishikawa, A.,Tonozuka, T. Crystal structure and substrate-binding mode of GH63 mannosylglycerate hydrolase from Thermus thermophilus HB8. J.Struct.Biol. 2015 190 21 30 4WDC 25759390 High-resolution crystal structure of water-soluble FraC (mutation F16P) 2014-09-08 2015-03-18 Morante, K.,Caaveiro, J.M.,Tanaka, K.,Gonzalez-Manas, J.M.,Tsumoto, K. A Pore-Forming Toxin Requires a Specific Residue for Its Activity in Membranes with Particular Physicochemical Properties J.Biol.Chem. 2015 290 10850 10861 4WGY Crystal Structure of Cytochrome c' from Alcaligenes xylosoxidans NCIMB 11015 at pH 10.4 2014-09-19 2015-03-18 Takashina, A.,Unno, M.,Kohzuma, T. X-ray Crystallographic Elucidation for the Alkaline High-spin State Transition of Iron(III) Cytochrome c' from Alcaligenes xylosoxidans NCIMB 11015 CHEM LETT. 2015 44 268 270 3WQB 25784551 Crystal structure of aeromonas sobria serine protease (ASP) and the chaperone (ORF2) complex 2014-01-24 2015-03-25 Kobayashi, H.,Yoshida, T.,Miyakawa, T.,Tashiro, M.,Okamoto, K.,Yamanaka, H.,Tanokura, M.,Tsuge, H. Structural Basis for Action of the External Chaperone for a Propeptide-deficient Serine Protease from Aeromonas sobria. J.Biol.Chem. 2015 290 11130 11143 3WRD 25777528 Crystal Structure of the KIF5C Motor Domain Without Any Nucleotide 2014-02-21 2015-04-01 Morikawa, M.,Yajima, H.,Nitta, R.,Inoue, S.,Ogura, T.,Sato, C.,Hirokawa, N. X-ray and Cryo-EM structures reveal mutual conformational changes of Kinesin and GTP-state microtubules upon binding Embo J. 2015 34 1270 1286 3X2T 25777528 Crystal Structure of the KIF5C Motor Domain With ADP 2015-01-02 2015-04-01 Morikawa, M.,Yajima, H.,Nitta, R.,Inoue, S.,Ogura, T.,Sato, C.,Hirokawa, N. X-ray and Cryo-EM structures reveal mutual conformational changes of Kinesin and GTP-state microtubules upon binding Embo J. 2015 34 1270 1286 4TWM 25747844 Crystal structure of dioscorin from Dioscorea japonica 2014-07-01 2015-04-01 Xue, Y.L.,Miyakawa, T.,Nakamura, A.,Hatano, K.,Sawano, Y.,Tanokura, M. Yam Tuber Storage Protein Reduces Plant Oxidants Using the Coupled Reactions as Carbonic Anhydrase and Dehydroascorbate Reductase Mol Plant 2015 8 1115 1118 3X1H 25785518 hPPARgamma Ligand binding domain in complex with 5-oxo-tricosahexaenoic acid 2014-11-18 2015-04-08 Egawa, D.,Itoh, T.,Yamamoto, K. Characterization of covalent bond formation between PPAR gamma and oxo-fatty acids. Bioconjug.Chem. 2015 26 690 698 3X1I 25785518 hPPARgamma Ligand binding domain in complex with 6-oxo-tetracosahexaenoic acid 2014-11-18 2015-04-08 Egawa, D.,Itoh, T.,Yamamoto, K. Characterization of covalent bond formation between PPAR gamma and oxo-fatty acids. Bioconjug.Chem. 2015 26 690 698 4WLD 25849385 High pressure protein crystallography of hen egg white lysozyme at 0.1 MPa 2014-10-07 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4WLT 25849385 High pressure protein crystallography of hen egg white lysozyme at 190 MPa 2014-10-08 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4WLX 25849385 High pressure protein crystallography of hen egg white lysozyme at 280 MPa 2014-10-08 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4WLY 25849385 High pressure protein crystallography of hen egg white lysozyme at 380 MPa 2014-10-08 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4WM1 25849385 High pressure protein crystallography of hen egg white lysozyme at 500 MPa 2014-10-08 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4WM2 25849385 High pressure protein crystallography of hen egg white lysozyme at 600 MPa 2014-10-08 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4WM3 25849385 High pressure protein crystallography of hen egg white lysozyme at 710 MPa 2014-10-08 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4WM4 25849385 High pressure protein crystallography of hen egg white lysozyme at 800 MPa 2014-10-08 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4WM5 25849385 High pressure protein crystallography of hen egg white lysozyme at 890 MPa 2014-10-08 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4WM6 25849385 High pressure protein crystallography of hen egg white lysozyme at 950 MPa 2014-10-08 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4XEN 25849385 High pressure protein crystallography of hen egg white lysozyme in complex with Tetra-N-acetylchitotetraose at 920 MPa 2014-12-24 2015-04-08 Yamada, H.,Nagae, T.,Watanabe, N. High-pressure protein crystallography of hen egg-white lysozyme Acta Crystallogr.,Sect.D 2015 71 742 753 4WDT 25849402 17beta-HSD5 in complex with 2-nitro-5-(phenylsulfonyl)phenol 2014-09-09 2015-04-15 Amano, Y.,Yamaguchi, T.,Niimi, T.,Sakashita, H. Structures of complexes of type 5 17 beta-hydroxysteroid dehydrogenase with structurally diverse inhibitors: insights into the conformational changes upon inhibitor binding. Acta Crystallogr.,Sect.D 2015 71 918 927 4WDU 25849402 17beta-HSD5 in complex with 4-chloro-N-(4-chlorobenzyl)-5-nitro-1H-pyrazole-3-carboxamide 2014-09-09 2015-04-15 Amano, Y.,Yamaguchi, T.,Niimi, T.,Sakashita, H. Structures of complexes of type 5 17 beta-hydroxysteroid dehydrogenase with structurally diverse inhibitors: insights into the conformational changes upon inhibitor binding. Acta Crystallogr.,Sect.D 2015 71 918 927 4XVD 25849402 17beta-HSD5 in complex with 4-nitro-2-({4-[3-(trifluoromethyl)phenyl]piperazin-1-yl}methyl)phenol 2015-01-27 2015-04-15 Amano, Y.,Yamaguchi, T.,Niimi, T.,Sakashita, H. Structures of complexes of type 5 17 beta-hydroxysteroid dehydrogenase with structurally diverse inhibitors: insights into the conformational changes upon inhibitor binding. Acta Crystallogr.,Sect.D 2015 71 918 927 4XVE 25849402 17beta-HSD5 in complex with 3-pentyl-2-[(pyridin-2-ylmethyl)sulfanyl]-7-(pyrrolidin-1-ylcarbonyl)quinazolin-4(3H)-one 2015-01-27 2015-04-15 Amano, Y.,Yamaguchi, T.,Niimi, T.,Sakashita, H. Structures of complexes of type 5 17 beta-hydroxysteroid dehydrogenase with structurally diverse inhibitors: insights into the conformational changes upon inhibitor binding. Acta Crystallogr.,Sect.D 2015 71 918 927 4YSW 25817260 Structure of rat xanthine oxidoreductase, C-terminal deletion protein variant, NADH bound form 2015-03-17 2015-04-22 Nishino, T.,Okamoto, K.,Kawaguchi, Y.,Matsumura, T.,Eger, B.T.,Pai, E.F.,Nishino, T. The C-terminal peptide plays a role in the formation of an intermediate form during the transition between xanthine dehydrogenase and xanthine oxidase. 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Structure of homoisocitrate dehydrogenase from Thermus thermophilus in complex with homoisocitrate, magnesium(II) and NADH To Be Published 0 0 0 0 4YL4 1.1 Angstrom resolution X-ray Crystallographic Structure of Psudoazurin 2015-03-05 2016-03-09 Yamaguchi, T.,Akao, K.,Takashina, A.,Asamura, S.,Unno, M.,Szilagyi, R.K.,Kohzuma, T. X-ray crystallographic evidence for the simultaneous presence of axial and rhombic sites in cupredoxins: atomic resolution X-ray crystal structure analysis of pseudoazurin and DFT modelling Rsc Adv 2016 6 88358 88365 4YL7 26952246 Crystal structure of the indole prenyltransferase MpnD from Marinactinospora thermotolerans 2015-03-05 2016-03-16 Mori, T.,Zhang, L.,Awakawa, T.,Hoshino, S.,Okada, M.,Morita, H.,Abe, I. Manipulation of prenylation reactions by structure-based engineering of bacterial indolactam prenyltransferases. Nat Commun 2016 7 10849 10849 5AYC 26913570 Crystal structure of Ruminococcus albus 4-O-beta-D-mannosyl-D-glucose phosphorylase (RaMP1) in complexes with sulfate and 4-O-beta-D-mannosyl-D-glucose 2015-08-13 2016-03-23 Ye, Y.,Saburi, W.,Odaka, R.,Kato, K.,Sakurai, N.,Komoda, K.,Nishimoto, M.,Kitaoka, M.,Mori, H.,Yao, M. Structural insights into the difference in substrate recognition of two mannoside phosphorylases from two GH130 subfamilies. Febs Lett. 2016 590 828 837 5AYD 26913570 Crystal structure of Ruminococcus albus beta-(1,4)-mannooligosaccharide phosphorylase (RaMP2) in complexes with phosphate 2015-08-13 2016-03-23 Ye, Y.,Saburi, W.,Odaka, R.,Kato, K.,Sakurai, N.,Komoda, K.,Nishimoto, M.,Kitaoka, M.,Mori, H.,Yao, M. Structural insights into the difference in substrate recognition of two mannoside phosphorylases from two GH130 subfamilies. Febs Lett. 2016 590 828 837 4Z4K 27062441 Crystal structure of GFP-TAX1BP1 UBZ1+2 domain fusion protein 2015-04-02 2016-04-06 Suzuki, N.,Rohaim, A.,Kato, R.,Dikic, I.,Wakatsuki, S.,Kawasaki, M. A novel mode of ubiquitin recognition by the ubiquitin-binding zinc finger domain of WRNIP1. Febs J. 2016 283 2004 2017 4ZXE 26936968 X-ray crystal structure of chitosan-binding module 1 derived from chitosanase/glucanase from Paenibacillus sp. IK-5. 2015-05-20 2016-04-13 Shinya, S.,Nishimura, S.,Kitaoku, Y.,Numata, T.,Kimoto, H.,Kusaoke, H.,Ohnuma, T.,Fukamizo, T. Mechanism of chitosan recognition by CBM32 carbohydrate-binding modules from a Paenibacillus sp. IK-5 chitosanase/glucanase Biochem.J. 2016 473 1085 1095 5F8B 27072782 Crystallographic Structure of PsoE with Co 2015-12-09 2016-04-20 Yamamoto, T.,Tsunematsu, Y.,Hara, K.,Suzuki, T.,Kishimoto, S.,Kawagishi, H.,Noguchi, H.,Hashimoto, H.,Tang, Y.,Hotta, K.,Watanabe, K. Oxidative trans to cis Isomerization of Olefins in Polyketide Biosynthesis. Angew. Chem. Int. Ed. Engl. 2016 55 6207 6210 4ZMR 27038544 Structural characterization of the full-length response regulator spr1814 in complex with a phosphate analogue reveals a novel conformational plasticity of the linker region 2015-05-04 2016-04-27 Park, A.K.,Lee, J.H.,Chi, Y.M.,Park, H. Structural characterization of the full-length response regulator spr1814 in complex with a phosphate analogue reveals a novel conformational plasticity of the linker region Biochem.Biophys.Res.Commun. 2016 473 625 629 5AUJ Pyrococcus furiosus proliferating cell nuclear antigen (PCNA) SeMet derivative 2015-04-21 2016-04-27 Watanabe, Y.,Oyama, T. Pyrococcus furiosus proliferating cell nuclear antigen (PCNA) SeMet derivative To Be Published 0 0 0 0 5AVA 26971576 Crystal structure of PHA-E lectin in complex with bisected glycan 2015-06-12 2016-04-27 Nagae, M.,Kanagawa, M.,Morita-Matsumoto, K.,Hanashima, S.,Kizuka, Y.,Taniguchi, N.,Yamaguchi, Y. Atomic visualization of a flipped-back conformation of bisected glycans bound to specific lectins Sci Rep 2016 6 22973 22973 5AYB 27092463 Crystal structure of GH1 Beta-Glucosidase TD2F2 N223G mutant 2015-08-12 2016-04-27 Matsuzawa, T.,Jo, T.,Uchiyama, T.,Manninen, J.A.,Arakawa, T.,Miyazaki, K.,Fushinobu, S.,Yaoi, K. Crystal structure and identification of a key amino acid for glucose tolerance, substrate specificity, and transglycosylation activity of metagenomic beta-glucosidase Td2F2 Febs J. 2016 283 2340 2353 5AYF 27088648 Crystal structure of SET7/9 in complex with cyproheptadine 2015-08-20 2016-04-27 Takemoto, Y.,Ito, A.,Niwa, H.,Okamura, M.,Fujiwara, T.,Hirano, T.,Handa, N.,Umehara, T.,Sonoda, T.,Ogawa, K.,Tariq, M.,Nishino, N.,Dan, S.,Kagechika, H.,Yamori, T.,Yokoyama, S.,Yoshida, M. Identification of Cyproheptadine as an Inhibitor of SET Domain Containing Lysine Methyltransferase 7/9 (Set7/9) That Regulates Estrogen-Dependent Transcription J.Med.Chem. 2016 59 3650 3660 5AYI 27092463 Crystal structure of GH1 Beta-glucosidase TD2F2 N223Q mutant 2015-08-21 2016-04-27 Matsuzawa, T.,Jo, T.,Uchiyama, T.,Manninen, J.A.,Arakawa, T.,Miyazaki, K.,Fushinobu, S.,Yaoi, K. Crystal structure and identification of a key amino acid for glucose tolerance, substrate specificity, and transglycosylation activity of metagenomic beta-glucosidase Td2F2 Febs J. 2016 283 2340 2353 5FG3 26868175 Crystal structure of GDP-bound aIF5B from Aeropyrum pernix 2015-12-20 2016-05-04 Murakami, R.,Miyoshi, T.,Uchiumi, T.,Ito, K. Crystal structure of translation initiation factor 5B from the crenarchaeon Aeropyrum pernix. Proteins 2016 84 712 717 5AXR Crystal Structure of Metallo-beta-Lactamase SMB-1 Bound to 2-mercaptoethanesulfonate 2015-07-31 2016-05-11 Wachino, J.,Arakawa, Y. Crystal Structure of Metallo-beta-Lactamase SMB-1 Bound to 2-mercaptoethanesulfonate To Be Published 0 0 0 0 5AYA Crystal Structure of Metallo-beta-Lactamase SMB-1 Bound to L-captopril 2015-08-12 2016-05-11 Wachino, J.,Arakawa, Y. Crystal Structure of Metallo-beta-Lactamase SMB-1 Bound to L-captopril To Be Published 0 0 0 0 4ZO6 26886583 Crystal Structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with cellobiose 2015-05-06 2016-05-18 Nakajima, M.,Yoshida, R.,Miyanaga, A.,Abe, K.,Takahashi, Y.,Sugimoto, N.,Toyoizumi, H.,Nakai, H.,Kitaoka, M.,Taguchi, H. Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua Plos One 2016 11 0 0 4ZO7 26886583 Crystal structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with gentiobiose 2015-05-06 2016-05-18 Nakajima, M.,Yoshida, R.,Miyanaga, A.,Abe, K.,Takahashi, Y.,Sugimoto, N.,Toyoizumi, H.,Nakai, H.,Kitaoka, M.,Taguchi, H. Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua Plos One 2016 11 0 0 4ZO8 26886583 Crystal Structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with sophorose 2015-05-06 2016-05-18 Nakajima, M.,Yoshida, R.,Miyanaga, A.,Abe, K.,Takahashi, Y.,Sugimoto, N.,Toyoizumi, H.,Nakai, H.,Kitaoka, M.,Taguchi, H. Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua Plos One 2016 11 0 0 4ZO9 26886583 Crystal Structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with laminaribiose 2015-05-06 2016-05-18 Nakajima, M.,Yoshida, R.,Miyanaga, A.,Abe, K.,Takahashi, Y.,Sugimoto, N.,Toyoizumi, H.,Nakai, H.,Kitaoka, M.,Taguchi, H. Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua Plos One 2016 11 0 0 4ZOA 26886583 Crystal Structure of beta-glucosidase from Listeria innocua in complex with isofagomine 2015-05-06 2016-05-18 Nakajima, M.,Yoshida, R.,Miyanaga, A.,Abe, K.,Takahashi, Y.,Sugimoto, N.,Toyoizumi, H.,Nakai, H.,Kitaoka, M.,Taguchi, H. Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua Plos One 2016 11 0 0 4ZOB 26886583 Crystal Structure of beta-glucosidase from Listeria innocua in complex with gluconolactone 2015-05-06 2016-05-18 Nakajima, M.,Yoshida, R.,Miyanaga, A.,Abe, K.,Takahashi, Y.,Sugimoto, N.,Toyoizumi, H.,Nakai, H.,Kitaoka, M.,Taguchi, H. Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua Plos One 2016 11 0 0 4ZOC 26886583 Crystal Structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with sophorotriose 2015-05-06 2016-05-18 Nakajima, M.,Yoshida, R.,Miyanaga, A.,Abe, K.,Takahashi, Y.,Sugimoto, N.,Toyoizumi, H.,Nakai, H.,Kitaoka, M.,Taguchi, H. Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua Plos One 2016 11 0 0 4ZOD 26886583 Crystal Structure of beta-glucosidase from Listeria innocua in complex with glucose 2015-05-06 2016-05-18 Nakajima, M.,Yoshida, R.,Miyanaga, A.,Abe, K.,Takahashi, Y.,Sugimoto, N.,Toyoizumi, H.,Nakai, H.,Kitaoka, M.,Taguchi, H. Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua Plos One 2016 11 0 0 4ZOE 26886583 Crystal Structure of beta-glucosidase from Listeria innocua 2015-05-06 2016-05-18 Nakajima, M.,Yoshida, R.,Miyanaga, A.,Abe, K.,Takahashi, Y.,Sugimoto, N.,Toyoizumi, H.,Nakai, H.,Kitaoka, M.,Taguchi, H. Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua Plos One 2016 11 0 0 5B2H 27237978 Crystal structure of HA33 from Clostridium botulinum serotype C strain Yoichi 2016-01-15 2016-06-15 Sagane, Y.,Hayashi, S.,Akiyama, T.,Matsumoto, T.,Hasegawa, K.,Yamano, A.,Suzuki, T.,Niwa, K.,Watanabe, T.,Yajima, S. Conformational divergence in the HA-33/HA-17 trimer of serotype C and D botulinum toxin complex Biochem.Biophys.Res.Commun. 2016 476 280 285 5C59 Crystal structure of the periplasmic region of MacB from E. coli 2015-06-19 2016-06-22 Ha, N.C.,Kim, J.S. Crystal structure of the periplasmic region of MacB from E. coli To Be Published 0 0 0 0 5D45 27096055 Crystal Structure of FABP4 in complex with 3-(5-cyclopropyl-2,3-diphenyl-1H-indol-1-yl)propanoic acid 2015-08-07 2016-06-22 Tagami, U.,Takahashi, K.,Igarashi, S.,Ejima, C.,Yoshida, T.,Takeshita, S.,Miyanaga, W.,Sugiki, M.,Tokumasu, M.,Hatanaka, T.,Kashiwagi, T.,Ishikawa, K.,Miyano, H.,Mizukoshi, T. Interaction Analysis of FABP4 Inhibitors by X-ray Crystallography and Fragment Molecular Orbital Analysis Acs Med.Chem.Lett. 2016 7 435 439 5D47 27096055 Crystal Structure of FABP4 in complex with 3-[5-cyclopropyl-3-(3-methoxypyridin-4-yl)-2-phenyl-1H-indol-1-yl] propanoic acid 2015-08-07 2016-06-22 Tagami, U.,Takahashi, K.,Igarashi, S.,Ejima, C.,Yoshida, T.,Takeshita, S.,Miyanaga, W.,Sugiki, M.,Tokumasu, M.,Hatanaka, T.,Kashiwagi, T.,Ishikawa, K.,Miyano, H.,Mizukoshi, T. Interaction Analysis of FABP4 Inhibitors by X-ray Crystallography and Fragment Molecular Orbital Analysis Acs Med.Chem.Lett. 2016 7 435 439 5D48 27096055 Crystal Structure of FABP4 in complex with 3-{5-cyclopropyl-3-(3,5-dimethyl-1H-pyrazol-4-yl)-2-[3-(propan-2-yloxy) phenyl]-1H-indol-1-yl}propanoic acid 2015-08-07 2016-06-22 Tagami, U.,Takahashi, K.,Igarashi, S.,Ejima, C.,Yoshida, T.,Takeshita, S.,Miyanaga, W.,Sugiki, M.,Tokumasu, M.,Hatanaka, T.,Kashiwagi, T.,Ishikawa, K.,Miyano, H.,Mizukoshi, T. Interaction Analysis of FABP4 Inhibitors by X-ray Crystallography and Fragment Molecular Orbital Analysis Acs Med.Chem.Lett. 2016 7 435 439 5B5B 27294600 Crystal structure of VDR-LBD complexed with 2-methylidene-26,27-diphenyl-19-nor-1,25-dihydroxyvitamin D3 2016-05-02 2016-06-29 Kato, A.,Itoh, T.,Anami, Y.,Egawa, D.,Yamamoto, K. Helix12-Stabilization Antagonist of Vitamin D Receptor Bioconjug.Chem. 2016 27 1750 1761 5JGF 27320913 Crystal structure of mApe1 2016-04-20 2016-06-29 Yamasaki, A.,Watanabe, Y.,Adachi, W.,Suzuki, K.,Matoba, K.,Kirisako, H.,Kumeta, H.,Nakatogawa, H.,Ohsumi, Y.,Inagaki, F.,Noda, N.N. Structural Basis for Receptor-Mediated Selective Autophagy of Aminopeptidase I Aggregates Cell Rep 2016 16 19 27 5JH9 27320913 Crystal structure of prApe1 2016-04-20 2016-06-29 Yamasaki, A.,Watanabe, Y.,Adachi, W.,Suzuki, K.,Matoba, K.,Kirisako, H.,Kumeta, H.,Nakatogawa, H.,Ohsumi, Y.,Inagaki, F.,Noda, N.N. Structural Basis for Receptor-Mediated Selective Autophagy of Aminopeptidase I Aggregates Cell Rep 2016 16 19 27 5AWH 27325485 Rhodobacter sphaeroides Argonaute in complex with guide RNA/target DNA heteroduplex 2015-07-03 2016-07-06 Miyoshi, T.,Ito, K.,Murakami, R.,Uchiumi, T. Structural basis for the recognition of guide RNA and target DNA heteroduplex by Argonaute. Nat Commun 2016 7 11846 11846 5AZT 27337155 Ternary complex of hPPARalpha ligand binding domain, 17-oxoDHA and a SRC1 peptide 2015-10-23 2016-07-06 Egawa, D.,Itoh, T.,Akiyama, Y.,Saito, T.,Yamamoto, K. 17-OxoDHA Is a PPAR alpha/gamma Dual Covalent Modifier and Agonist Acs Chem.Biol. 2016 0 0 0 5AZV 27337155 Crystal structure of hPPARgamma ligand binding domain complexed with 17-oxoDHA 2015-10-23 2016-07-06 Egawa, D.,Itoh, T.,Akiyama, Y.,Saito, T.,Yamamoto, K. 17-OxoDHA Is a PPAR alpha/gamma Dual Covalent Modifier and Agonist Acs Chem.Biol. 2016 0 0 0 5AXA Crystal structure of mouse SAHH complexed with adenosine 2015-07-24 2016-07-27 Kusakabe, Y.,Ishihara, M.,Tanaka, N. Crystal structure of mouse SAHH complexed with adenosine To Be Published 0 0 0 0 5JGA 27448772 Crystal structure of human TAK1/TAB1 fusion protein in complex with ligand 11c 2016-04-19 2016-07-27 Muraoka, T.,Ide, M.,Morikami, K.,Irie, M.,Nakamura, M.,Miura, T.,Kamikawa, T.,Nishihara, M.,Kashiwagi, H. Discovery of a potent and highly selective transforming growth factor beta receptor-associated kinase 1 (TAK1) inhibitor by structure based drug design (SBDD) Bioorg.Med.Chem. 2016 24 4206 4217 5CA3 27688023 Crystal structure of the glycosynthase mutant D324N of Escherichia coli GH63 glycosidase in complex with glucose and lactose 2015-06-29 2016-08-10 Miyazaki, T.,Nishikawa, A.,Tonozuka, T. Crystal structure of the enzyme-product complex reveals sugar ring distortion during catalysis by family 63 inverting alpha-glycosidase. J.Struct.Biol. 2016 0 0 0 5DNU 27507097 Crystal structure of Striga KAI2-like protein in complex with karrikin 2015-09-10 2016-08-17 Xu, Y.,Miyakawa, T.,Nakamura, H.,Nakamura, A.,Imamura, Y.,Asami, T.,Tanokura, M. Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica Sci Rep 2016 6 31386 31386 5DNV 27507097 Crystal structure of KAI2-like protein from Striga (apo state 2) 2015-09-10 2016-08-17 Xu, Y.,Miyakawa, T.,Nakamura, H.,Nakamura, A.,Imamura, Y.,Asami, T.,Tanokura, M. Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica Sci Rep 2016 6 31386 31386 4ZMQ 27545624 Crystal structure of human P-cadherin (ss-X-dimer) 2015-05-04 2016-09-07 Kudo, S.,Caaveiro, J.M.,Tsumoto, K. Adhesive Dimerization of Human P-Cadherin Catalyzed by a Chaperone-like Mechanism Structure 2016 24 1523 1536 4ZMT 27545624 Crystal structure of human P-cadherin (ss-X-dimer-long) 2015-05-04 2016-09-07 Kudo, S.,Caaveiro, J.M.,Tsumoto, K. Adhesive Dimerization of Human P-Cadherin Catalyzed by a Chaperone-like Mechanism Structure 2016 24 1523 1536 4ZMX 27545624 Crystal structure of human P-cadherin (int-X-dimer) 2015-05-04 2016-09-07 Kudo, S.,Caaveiro, J.M.,Tsumoto, K. Adhesive Dimerization of Human P-Cadherin Catalyzed by a Chaperone-like Mechanism Structure 2016 24 1523 1536 4ZMY 27545624 Crystal structure of human P-cadherin (monomer 1) 2015-05-04 2016-09-07 Kudo, S.,Caaveiro, J.M.,Tsumoto, K. Adhesive Dimerization of Human P-Cadherin Catalyzed by a Chaperone-like Mechanism Structure 2016 24 1523 1536 4ZMZ 27545624 Crystal structure of human P-cadherin (monomer 2) 2015-05-04 2016-09-07 Kudo, S.,Caaveiro, J.M.,Tsumoto, K. Adhesive Dimerization of Human P-Cadherin Catalyzed by a Chaperone-like Mechanism Structure 2016 24 1523 1536 5AYU Crystal structure of HyHEL-10 Fv 2015-09-04 2016-09-07 Nakanishi, T.,Tsumoto, K.,Yokota, A.,Kondo, H.,Kumagai, I. Crystal structure of HyHEL-10 Fv To Be Published 0 0 0 0 5B6S 27589854 Catalytic domain of Coprinopsis cinerea GH62 alpha-L-arabinofuranosidase 2016-06-01 2016-09-07 Tonozuka, T.,Tanaka, Y.,Okuyama, S.,Miyazaki, T.,Nishikawa, A.,Yoshida, M. Structure of the Catalytic Domain of alpha-L-Arabinofuranosidase from Coprinopsis cinerea, CcAbf62A, Provides Insights into Structure-Function Relationships in Glycoside Hydrolase Family 62 Appl. Biochem. Biotechnol. 2017 181 511 525 5AZW 27569046 Crystal structure of p24beta1 GOLD domain 2015-10-23 2016-09-14 Nagae, M.,Hirata, T.,Morita-Matsumoto, K.,Theiler, R.,Fujita, M.,Kinoshita, T.,Yamaguchi, Y. 3D Structure and Interaction of p24 beta and p24 delta Golgi Dynamics Domains: Implication for p24 Complex Formation and Cargo Transport J.Mol.Biol. 2016 428 4087 4099 5EY2 27596595 Crystal structure of CodY from Bacillus cereus 2015-11-24 2016-09-14 Han, A.R.,Kang, H.R.,Son, J.,Kwon, D.H.,Kim, S.,Lee, W.C.,Song, H.K.,Song, M.J.,Hwang, K.Y. The structure of the pleiotropic transcription regulator CodY provides insight into its GTP-sensing mechanism Nucleic Acids Res. 2016 44 9483 9493 5B47 27619895 2-Oxoacid:Ferredoxin Oxidoreductase 2 from Sulfolobus tokodai - pyruvate complex 2016-04-01 2016-09-28 Yan, Z.,Maruyama, A.,Arakawa, T.,Fushinobu, S.,Wakagi, T. Crystal structures of archaeal 2-oxoacid:ferredoxin oxidoreductases from Sulfolobus tokodaii Sci Rep 2016 6 33061 33061 5B4B 27609419 Crystal structure of LpxH with lipid X in spacegroup C2 2016-04-03 2016-09-28 Okada, C.,Wakabayashi, H.,Kobayashi, M.,Shinoda, A.,Tanaka, I.,Yao, M. Crystal structures of the UDP-diacylglucosamine pyrophosphohydrase LpxH from Pseudomonas aeruginosa Sci Rep 2016 6 32822 32822 5FB3 27616573 Structure of glycerophosphate dehydrogenase in complex with NADPH 2015-12-14 2016-10-12 Hayashi, J.,Yamamoto, K.,Yoneda, K.,Ohshima, T.,Sakuraba, H. Unique coenzyme binding mode of hyperthermophilic archaeal sn-glycerol-1-phosphate dehydrogenase from Pyrobaculum calidifontis Proteins 2016 84 1786 1796 5GHR 27599844 DNA replication protein 2016-06-20 2016-10-12 Oyama, T.,Ishino, S.,Shirai, T.,Yamagami, T.,Nagata, M.,Ogino, H.,Kusunoki, M.,Ishino, Y. Atomic structure of an archaeal GAN suggests its dual roles as an exonuclease in DNA repair and a CMG component in DNA replication. Nucleic Acids Res. 2016 44 9505 9517 5GW7 27688023 Crystal structure of the glycosynthase mutant E727A of Escherichia coli GH63 glycosidase in complex with glucose and lactose 2016-09-08 2016-10-12 Miyazaki, T.,Nishikawa, A.,Tonozuka, T. Crystal structure of the enzyme-product complex reveals sugar ring distortion during catalysis by family 63 inverting alpha-glycosidase J.Struct.Biol. 2016 196 479 486 5GHK 27830776 Crystal Structure Analysis of Canine serum albumin 2016-06-20 2016-11-23 Yamada, K.,Yokomaku, K.,Kureishi, M.,Akiyama, M.,Kihira, K.,Komatsu, T. Artificial Blood for Dogs Sci Rep 2016 6 36782 36782 5GHW 27905530 Crystal structure of broad neutralizing antibody 10E8 with long epitope bound 2016-06-21 2016-11-23 Rujas, E.,Caaveiro, J.M.,Partida-Hanon, A.,Gulzar, N.,Morante, K.,Apellaniz, B.,Garcia-Porras, M.,Bruix, M.,Tsumoto, K.,Scott, J.K.,Jimenez, M.A.,Nieva, J.L. Structural basis for broad neutralization of HIV-1 through the molecular recognition of 10E8 helical epitope at the membrane interface Sci Rep 2016 6 38177 38177 5GHW 27905530 Crystal structure of broad neutralizing antibody 10E8 with long epitope bound 2016-06-21 2016-11-23 Rujas, E.,Caaveiro, J.M.,Partida-Hanon, A.,Gulzar, N.,Morante, K.,Apellaniz, B.,Garcia-Porras, M.,Bruix, M.,Tsumoto, K.,Scott, J.K.,Jimenez, M.A.,Nieva, J.L. Structural basis for broad neutralization of HIV-1 through the molecular recognition of 10E8 helical epitope at the membrane interface Sci Rep 2016 6 38177 38177 5B41 27535484 Crystal structure of VDR-LBD complexed with 2-methylidene-19-nor-1a,25-dihydroxyvitamin D3 2016-03-23 2016-12-07 Anami, Y.,Shimizu, N.,Ekimoto, T.,Egawa, D.,Itoh, T.,Ikeguchi, M.,Yamamoto, K. 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Proc.Natl.Acad.Sci.USA 2020 117 4741 4748 6KAU 32071219 Carbonmonoxy human hemoglobin A in the R2 quaternary structure at 140 K: Dark 2019-06-24 2020-02-19 Shibayama, N.,Sato-Tomita, A.,Ohki, M.,Ichiyanagi, K.,Park, S.Y. Direct observation of ligand migration within human hemoglobin at work. Proc.Natl.Acad.Sci.USA 2020 117 4741 4748 6KAV 32071219 Carbonmonoxy human hemoglobin A in the R2 quaternary structure at 140 K: Light 2019-06-24 2020-02-19 Shibayama, N.,Sato-Tomita, A.,Ohki, M.,Ichiyanagi, K.,Park, S.Y. Direct observation of ligand migration within human hemoglobin at work. Proc.Natl.Acad.Sci.USA 2020 117 4741 4748 6L5V 32071219 Carbonmonoxy human hemoglobin C in the R quaternary structure at 95 K: Light (2 min) 2019-10-24 2020-02-19 Shibayama, N.,Sato-Tomita, A.,Ohki, M.,Ichiyanagi, K.,Park, S.Y. Direct observation of ligand migration within human hemoglobin at work. Proc.Natl.Acad.Sci.USA 2020 117 4741 4748 6L5W 32071219 Carbonmonoxy human hemoglobin C in the R quaternary structure at 140 K: Light (2 min) 2019-10-24 2020-02-19 Shibayama, N.,Sato-Tomita, A.,Ohki, M.,Ichiyanagi, K.,Park, S.Y. Direct observation of ligand migration within human hemoglobin at work. Proc.Natl.Acad.Sci.USA 2020 117 4741 4748 6L5X 32071219 Carbonmonoxy human hemoglobin A in the R2 quaternary structure at 95 K: Light (2 min) 2019-10-24 2020-02-19 Shibayama, N.,Sato-Tomita, A.,Ohki, M.,Ichiyanagi, K.,Park, S.Y. Direct observation of ligand migration within human hemoglobin at work. Proc.Natl.Acad.Sci.USA 2020 117 4741 4748 6L5Y 32071219 Carbonmonoxy human hemoglobin A in the R2 quaternary structure at 140 K: Light (2 min) 2019-10-24 2020-02-19 Shibayama, N.,Sato-Tomita, A.,Ohki, M.,Ichiyanagi, K.,Park, S.Y. Direct observation of ligand migration within human hemoglobin at work. Proc.Natl.Acad.Sci.USA 2020 117 4741 4748 6LCW 32071219 Crosslinked alpha(Ni)-beta(Ni) human hemoglobin A in the T quaternary structure at 95 K: Dark 2019-11-20 2020-02-19 Shibayama, N.,Sato-Tomita, A.,Ohki, M.,Ichiyanagi, K.,Park, S.Y. Direct observation of ligand migration within human hemoglobin at work. Proc.Natl.Acad.Sci.USA 2020 117 4741 4748 6LCX 32071219 Crosslinked alpha(Ni)-beta(Ni) human hemoglobin A in the T quaternary structure at 95 K: Light 2019-11-20 2020-02-19 Shibayama, N.,Sato-Tomita, A.,Ohki, M.,Ichiyanagi, K.,Park, S.Y. Direct observation of ligand migration within human hemoglobin at work. Proc.Natl.Acad.Sci.USA 2020 117 4741 4748 6K37 32042199 Crystal structure of BioU (K124A) from Synechocystis sp.PCC6803 in complex with NAD+ and the analog of reaction intermediate, 3-(1-aminoethyl)-nonanedioic acid 2019-05-16 2020-02-26 Sakaki, K.,Ohishi, K.,Shimizu, T.,Kobayashi, I.,Mori, N.,Matsuda, K.,Tomita, T.,Watanabe, H.,Tanaka, K.,Kuzuyama, T.,Nishiyama, M. A suicide enzyme catalyzes multiple reactions for biotin biosynthesis in cyanobacteria. Nat.Chem.Biol. 2020 16 415 422 6K38 32042199 Crystal structure of BioU (H233A) from Synechocystis sp.PCC6803 conjugated with DAPA 2019-05-16 2020-02-26 Sakaki, K.,Ohishi, K.,Shimizu, T.,Kobayashi, I.,Mori, N.,Matsuda, K.,Tomita, T.,Watanabe, H.,Tanaka, K.,Kuzuyama, T.,Nishiyama, M. A suicide enzyme catalyzes multiple reactions for biotin biosynthesis in cyanobacteria. Nat.Chem.Biol. 2020 16 415 422 6JL4 Crystal structure of aspartate transcarbamoylase from Trypanosoma cruzi in complex with carbamoyl aspartate (CA) and phosphate (Pi) 2019-03-04 2020-03-04 Matoba, K.,Shiba, T.,Nara, T.,Aoki, T.,Nagasaki, S.,Hayamizu, R.,Honma, T.,Tanaka, A.,Inoue, M.,Matsuoka, S.,Balogun, E.O.,Inaoka, D.K.,Kita, K.,Harada, S. Crystallographic snapshots of Trypanosoma cruzi aspartate transcarbamoylase revealed an ordered Bi-Bi reaction mechanism To Be Published 0 0 0 0 6JY6 32083178 Structure of dark-state marine bacterial chloride importer, NM-R3, with Pulse laser (ND-1%) at 95K. 2019-04-26 2020-03-04 Yun, J.H.,Ohki, M.,Park, J.H.,Ishimoto, N.,Sato-Tomita, A.,Lee, W.,Jin, Z.,Tame, J.R.H.,Shibayama, N.,Park, S.Y.,Lee, W. Pumping mechanism of NM-R3, a light-driven bacterial chloride importer in the rhodopsin family. Sci Adv 2020 6 0 0 6JY7 32083178 Structure of light-state marine bacterial chloride importer, NM-R3, with Pulse laser (ND-1%) at 95K. 2019-04-26 2020-03-04 Yun, J.H.,Ohki, M.,Park, J.H.,Ishimoto, N.,Sato-Tomita, A.,Lee, W.,Jin, Z.,Tame, J.R.H.,Shibayama, N.,Park, S.Y.,Lee, W. Pumping mechanism of NM-R3, a light-driven bacterial chloride importer in the rhodopsin family. Sci Adv 2020 6 0 0 6JY8 32083178 Structure of dark-state marine bacterial chloride importer, NM-R3, with CW laser (ND-3%) at 95K. 2019-04-26 2020-03-04 Yun, J.H.,Ohki, M.,Park, J.H.,Ishimoto, N.,Sato-Tomita, A.,Lee, W.,Jin, Z.,Tame, J.R.H.,Shibayama, N.,Park, S.Y.,Lee, W. Pumping mechanism of NM-R3, a light-driven bacterial chloride importer in the rhodopsin family. Sci Adv 2020 6 0 0 6JY9 32083178 Structure of light-state marine bacterial chloride importer, NM-R3, with CW laser (ND-3%) at 95K. 2019-04-26 2020-03-04 Yun, J.H.,Ohki, M.,Park, J.H.,Ishimoto, N.,Sato-Tomita, A.,Lee, W.,Jin, Z.,Tame, J.R.H.,Shibayama, N.,Park, S.Y.,Lee, W. Pumping mechanism of NM-R3, a light-driven bacterial chloride importer in the rhodopsin family. Sci Adv 2020 6 0 0 6JYA 32083178 Structure of dark-state marine bacterial chloride importer, NM-R3, with CW laser (ND-10%) at 95K. 2019-04-26 2020-03-04 Yun, J.H.,Ohki, M.,Park, J.H.,Ishimoto, N.,Sato-Tomita, A.,Lee, W.,Jin, Z.,Tame, J.R.H.,Shibayama, N.,Park, S.Y.,Lee, W. Pumping mechanism of NM-R3, a light-driven bacterial chloride importer in the rhodopsin family. Sci Adv 2020 6 0 0 6JYB 32083178 Structure of light-state marine bacterial chloride importer, NM-R3, with CW laser (ND-10%) at 95K. 2019-04-26 2020-03-04 Yun, J.H.,Ohki, M.,Park, J.H.,Ishimoto, N.,Sato-Tomita, A.,Lee, W.,Jin, Z.,Tame, J.R.H.,Shibayama, N.,Park, S.Y.,Lee, W. Pumping mechanism of NM-R3, a light-driven bacterial chloride importer in the rhodopsin family. Sci Adv 2020 6 0 0 6JYC 32083178 Structure of dark-state marine bacterial chloride importer, NM-R3, with CW laser (ND-30%) at 95K. 2019-04-26 2020-03-04 Yun, J.H.,Ohki, M.,Park, J.H.,Ishimoto, N.,Sato-Tomita, A.,Lee, W.,Jin, Z.,Tame, J.R.H.,Shibayama, N.,Park, S.Y.,Lee, W. Pumping mechanism of NM-R3, a light-driven bacterial chloride importer in the rhodopsin family. Sci Adv 2020 6 0 0 6JYD 32083178 Structure of light-state marine bacterial chloride importer, NM-R3, with CW laser (ND-30%) at 95K. 2019-04-26 2020-03-04 Yun, J.H.,Ohki, M.,Park, J.H.,Ishimoto, N.,Sato-Tomita, A.,Lee, W.,Jin, Z.,Tame, J.R.H.,Shibayama, N.,Park, S.Y.,Lee, W. Pumping mechanism of NM-R3, a light-driven bacterial chloride importer in the rhodopsin family. 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Identification of the Inhibitory Compounds for Metallo-beta-lactamases and Structural Analysis of the Binding Modes. Chem Pharm Bull (Tokyo) 2021 69 1179 1183 6JXS 32861785 Crystal Structure of Indigo reductase (Y151F) from Bacillus smithii type strain DSM 4216 2019-04-24 2020-04-01 Yoneda, K.,Yoshioka, M.,Sakuraba, H.,Araki, T.,Ohshima, T. Structural and biochemical characterization of an extremely thermostable FMN-dependent NADH-indigo reductase from Bacillus smithii. Int.J.Biol.Macromol. 2020 164 3259 3267 6LCQ 32192842 Crystal structure of rice defensin OsAFP1 2019-11-19 2020-04-01 Ochiai, A.,Ogawa, K.,Fukuda, M.,Suzuki, M.,Ito, K.,Tanaka, T.,Sagehashi, Y.,Taniguchi, M. Crystal structure of rice defensin OsAFP1 and molecular insight into lipid-binding. J.Biosci.Bioeng. 2020 130 6 13 6LFF 32187371 transcription factor SATB1 CUTr1 domain in complex with a phosphorothioate DNA 2019-12-02 2020-04-01 Yamasaki, K.,Akutsu, Y.,Yamasaki, T.,Miyagishi, M.,Kubota, T. 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Febs J. 2020 287 5114 5129 6JZW Crystal structure of SufU from Bacillus subtilis with Cys persulfurated 2019-05-04 2020-05-06 Fujishiro, T.,Terahata, T.,Shimada, Y.,Takahashi, Y. Zinc-persulfide complex for sulfur mobilization by SufU in SUF-like machinery for Fe-S cluster biosynthesis to be published 0 0 0 0 6K3D 33164755 Structure of multicopper oxidase mutant 2019-05-17 2020-05-20 Satomura, T.,Hirano, T.,Inagaki, K.,Horinaga, K.,Takamura, E.,Sakamoto, H.,Ohshida, T.,Ohshima, T.,Sakuraba, H.,Suye, S.I. Activity enhancement of multicopper oxidase from a hyperthermophile via directed evolution, and its application as the element of a high performance biocathode. J.Biotechnol. 2021 325 226 232 6LGC 32381508 Bombyx mori GH13 sucrose hydrolase complexed with 1-deoxynojirimycin 2019-12-05 2020-05-20 Miyazaki, T.,Park, E.Y. Structure-function analysis of silkworm sucrose hydrolase uncovers the mechanism of substrate specificity in GH13 subfamily 17exo-alpha-glucosidases. 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Cyanobacterial branching enzymes bind to alpha-glucan via surface binding sites Arch.Biochem.Biophys. 2021 702 108821 0 6KST Crystal structure of the catalytic domain of chitinase ChiL from Chitiniphilus shinanonensis (CsChiL) 2019-08-26 2020-08-26 Ueda, M.,Sonoda, N.,Shimosaka, M.,Arai, R. Crystal structure of a chitinase (CsChiL) from Chitiniphilus shinanonensis To be published 0 0 0 0 7COV 32808707 Potato D-enzyme, native (substrate free) 2020-08-05 2020-08-26 Imamura, K.,Matsuura, T.,Nakagawa, A.,Kitamura, S.,Kusunoki, M.,Takaha, T.,Unno, H. Structural analysis and reaction mechanism of the disproportionating enzyme (D-enzyme) from potato. Protein Sci. 2020 29 2085 2100 6KXL Crystal structure of the catalytic domain of Chitiniphilus shinanonensis chitinase ChiL (CsChiL) complexed with N,N'-diacetylchitobiose 2019-09-12 2020-09-16 Ueda, M.,Sonoda, N.,Shimosaka, M.,Arai, R. Crystal structure of CsChiL, a chitinase from Chitiniphilus shinanonensis To be published 0 0 0 0 6KXM Crystal structure of D157N mutant of Chitiniphilus shinanonensis chitinase ChiL (CsChiL) complexed with N,N'-diacetylchitobiose 2019-09-12 2020-09-16 Ueda, M.,Sonoda, N.,Shimosaka, M.,Arai, R. Crystal structure of CsChiL, a chitinase from Chitiniphilus shinanonensis To be published 0 0 0 0 7CYW Crystal structure of a flavonoid C-glucosyltrasferase from Fagopyrum esculentum (FeCGTa) complexed with BrUTP 2020-09-04 2020-09-23 Koyanagi, Y.,Arai, R.,Taguchi, G. Crystal structure of a flavonoid C-glucosyltrasferase from Fagopyrum esculentum To be published 0 0 0 0 7C07 32958768 Crystal structure of yeast U2AF1 complex bound to 5'-AAGGU RNA. 2020-04-30 2020-09-30 Yoshida, H.,Park, S.Y.,Sakashita, G.,Nariai, Y.,Kuwasako, K.,Muto, Y.,Urano, T.,Obayashi, E. Elucidation of the aberrant 3' splice site selection by cancer-associated mutations on the U2AF1. 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TAS1553, a novel small molecule ribonucleotide reductase (RNR) subunit interaction inhibitor, displays remarkable anti-tumor activity To be published 0 0 0 0 7BYT 33093171 Crystal structure of exo-beta-1,3-galactanase from Phanerochaete chrysosporium Pc1,3Gal43A with galactose 2020-04-24 2020-11-04 Matsuyama, K.,Kishine, N.,Fujimoto, Z.,Sunagawa, N.,Kotake, T.,Tsumuraya, Y.,Samejima, M.,Igarashi, K.,Kaneko, S. Unique active-site and subsite features in the arabinogalactan-degrading GH43 exo-beta-1,3-galactanase from Phanerochaete chrysosporium . 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The 5-Ketofructose Reductase of Gluconobacter sp. Strain CHM43 Is a Novel Class in the Shikimate Dehydrogenase Family. J.Bacteriol. 2021 203 0 0 7ESM 34303708 Crystal structure of a L-rhamnose-alpha-1,4-D-glucuronate lyase from Fusarium oxysporum 12S, L-Rha complex 2021-05-11 2021-08-04 Kondo, T.,Kichijo, M.,Maruta, A.,Nakaya, M.,Takenaka, S.,Arakawa, T.,Fushinobu, S.,Sakamoto, T. Structural and functional analysis of gum arabic l-rhamnose-alpha-1,4-d-glucuronate lyase establishes a novel polysaccharide lyase family. J.Biol.Chem. 2021 297 101001 101001 7EIJ 34358565 Ancestral L-Lys oxidase K387A variant (L-Arg binding form) 2021-03-31 2021-08-11 Sugiura, S.,Nakano, S.,Niwa, M.,Hasebe, F.,Matsui, D.,Ito, S. Catalytic mechanism of ancestral L-lysine oxidase assigned by sequence data mining. J.Biol.Chem. 2021 297 101043 101043 7EIP 34392362 Crystal structure of ligand-free chondroitin ABC lyase I 2021-03-31 2021-08-25 Takashima, M.,Watanabe, I.,Miyanaga, A.,Eguchi, T. Substrate specificity of Chondroitinase ABC I based on analyses of biochemical reactions and crystal structures in complex with disaccharides. Glycobiology 2021 31 1571 1581 7EIQ 34392362 Crystal structure of chondroitin ABC lyase I in complex with chondroitin disaccharide 4S 2021-03-31 2021-08-25 Takashima, M.,Watanabe, I.,Miyanaga, A.,Eguchi, T. Substrate specificity of Chondroitinase ABC I based on analyses of biochemical reactions and crystal structures in complex with disaccharides. Glycobiology 2021 31 1571 1581 7DG7 34559526 DPBB domain of VCP-like ATPase from Methanopyrus kandleri 2020-11-11 2021-09-29 Yagi, S.,Padhi, A.K.,Vucinic, J.,Barbe, S.,Schiex, T.,Nakagawa, R.,Simoncini, D.,Zhang, K.Y.J.,Tagami, S. Seven Amino Acid Types Suffice to Create the Core Fold of RNA Polymerase. J.Am.Chem.Soc. 2021 143 15998 16006 7DU6 34559526 Crystal structure of the rationally designed mkDPBB_sym2 protein 2021-01-08 2021-09-29 Yagi, S.,Padhi, A.K.,Vucinic, J.,Barbe, S.,Schiex, T.,Nakagawa, R.,Simoncini, D.,Zhang, K.Y.J.,Tagami, S. Seven Amino Acid Types Suffice to Create the Core Fold of RNA Polymerase. J.Am.Chem.Soc. 2021 143 15998 16006 7DU7 34559526 Crystal structure of the rationally designed mkDPBB_sym1 protein 2021-01-08 2021-09-29 Yagi, S.,Padhi, A.K.,Vucinic, J.,Barbe, S.,Schiex, T.,Nakagawa, R.,Simoncini, D.,Zhang, K.Y.J.,Tagami, S. Seven Amino Acid Types Suffice to Create the Core Fold of RNA Polymerase. J.Am.Chem.Soc. 2021 143 15998 16006 7FE3 34728215 Crystal structure of GH65 alpha-1,2-glucosidase from Flavobacterium johnsoniae 2021-07-19 2021-11-10 Nakamura, S.,Nihira, T.,Kurata, R.,Nakai, H.,Funane, K.,Park, E.Y.,Miyazaki, T. Structure of a bacterial alpha-1,2-glucosidase defines mechanisms of hydrolysis and substrate specificity in GH65 family hydrolases. 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Varying the Directionality of Protein Catalysts for Aldol and Retro-Aldol Reactions. Chembiochem 2022 23 0 0 7F7Q 34826537 Enterococcus faecalis GH31 alpha-N-acetylgalactosaminidase D455A in complex with p-nitrophenyl alpha-N-acetylgalactosaminide 2021-06-30 2021-12-08 Miyazaki, T.,Ikegaya, M.,Alonso-Gil, S. Structural and mechanistic insights into the substrate specificity and hydrolysis of GH31 alpha-N-acetylgalactosaminidase. Biochimie 2022 195 90 99 7F7R 34826537 Enterococcus faecalis GH31 alpha-N-acetylgalactosaminidase D455N in complex with Tn antigen 2021-06-30 2021-12-08 Miyazaki, T.,Ikegaya, M.,Alonso-Gil, S. Structural and mechanistic insights into the substrate specificity and hydrolysis of GH31 alpha-N-acetylgalactosaminidase. Biochimie 2022 195 90 99 7E2O 34471047 X-ray Crystal structure of PPARgamma R288H mutant. 2021-02-06 2022-01-19 Egawa, D.,Ogiso, T.,Nishikata, K.,Yamamoto, K.,Itoh, T. Structural Insights into the Loss-of-Function R288H Mutant of Human PPAR gamma. 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Biochem.Biophys.Res.Commun. 2022 621 162 167 7XTM 36106687 Crystal structure of the C-terminal domain of Bombyx mori N-acetylglucosaminyltransferase IV 2022-05-17 2022-09-28 Oka, N.,Mori, S.,Ikegaya, M.,Park, E.Y.,Miyazaki, T. Crystal structure and sugar-binding ability of the C-terminal domain of N-acetylglucosaminyltransferase IV establish a new carbohydrate-binding module family. Glycobiology 2022 32 1153 1163 7XTN 36106687 Crystal structure of the C-terminal domain of Bombyx mori N-acetylglucosaminyltransferase IV in complex with N-acetylglucosamine 2022-05-17 2022-09-28 Oka, N.,Mori, S.,Ikegaya, M.,Park, E.Y.,Miyazaki, T. Crystal structure and sugar-binding ability of the C-terminal domain of N-acetylglucosaminyltransferase IV establish a new carbohydrate-binding module family. Glycobiology 2022 32 1153 1163 7Y8X 36302388 Crystal structure of AlbEF homolog from Quasibacillus thermotolerans in complex with Ni(II) 2022-06-24 2022-10-12 Ishida, K.,Nakamura, A.,Kojima, S. Crystal structure of the AlbEF complex involved in subtilosin A biosynthesis. Structure 2022 30 1637 0 7VZS FAD-dpendent Glucose Dehydrogenase complexed with an inhibitor at pH7.56 2021-11-16 2022-11-16 Nakajima, Y. Conformational change of catalytic residue in reduced enzyme of FAD-dependent Glucose Dehydrogenase at pH6.5 To Be Published 0 0 0 0 7WKI 35452676 Structure of the ultra-affinity complex between CFH and a nanobody 2022-01-10 2022-11-23 Yokoo, T.,Tanabe, A.,Yoshida, Y.,Caaveiro, J.M.M.,Nakakido, M.,Ikeda, Y.,Fujimura, Y.,Matsumoto, M.,Entzminger, K.,Maruyama, T.,Okumura, C.J.,Nangaku, M.,Tsumoto, K. Antibody recognition of complement factor H reveals a flexible loop involved in atypical hemolytic uremic syndrome pathogenesis. J.Biol.Chem. 2022 298 101962 101962 7Y08 35998389 Crystal structure of Ricin A chain bound with (2-amino-4-oxo-3,4-dihydropteridine-7-carbonyl)glycyl-L-phenylalanine 2022-06-03 2022-12-21 Goto, M.,Higashi, S.,Ohba, T.,Kawata, R.,Nagatsu, K.,Suzuki, S.,Anslyn, E.V.,Saito, R. Conformational change in ricin toxin A-Chain: A critical factor for inhibitor binding to the secondary pocket. Biochem.Biophys.Res.Commun. 2022 627 1 4 8HUB 36563792 AMP deaminase 2 in complex with an inhibitor 2022-12-23 2023-01-18 Kitao, Y.,Saito, T.,Watanabe, S.,Ohe, Y.,Takahashi, K.,Akaki, T.,Adachi, T.,Doi, S.,Yamanaka, K.,Murai, Y.,Oba, M.,Suzuki, T. The discovery of 3,3-dimethyl-1,2,3,4-tetrahydroquinoxaline-1-carboxamides as AMPD2 inhibitors with a novel mechanism of action. Bioorg.Med.Chem.Lett. 2023 80 129110 129110 7YKB 36463961 Neutron Structure of PcyA D105N Mutant Complexed with Biliverdin at Room Temperature 2022-07-22 2023-01-25 Joutsuka, T.,Nanasawa, R.,Igarashi, K.,Horie, K.,Sugishima, M.,Hagiwara, Y.,Wada, K.,Fukuyama, K.,Yano, N.,Mori, S.,Ostermann, A.,Kusaka, K.,Unno, M. Neutron crystallography and quantum chemical analysis of bilin reductase PcyA mutants reveal substrate and catalytic residue protonation states. J.Biol.Chem. 2022 299 102763 102763 7YKB 36463961 Neutron Structure of PcyA D105N Mutant Complexed with Biliverdin at Room Temperature 2022-07-22 2023-01-25 Joutsuka, T.,Nanasawa, R.,Igarashi, K.,Horie, K.,Sugishima, M.,Hagiwara, Y.,Wada, K.,Fukuyama, K.,Yano, N.,Mori, S.,Ostermann, A.,Kusaka, K.,Unno, M. Neutron crystallography and quantum chemical analysis of bilin reductase PcyA mutants reveal substrate and catalytic residue protonation states. J.Biol.Chem. 2022 299 102763 102763 7YQA 36748339 Crystal structure of D-threonine aldolase from Chlamydomonas reinhardtii 2022-08-05 2023-02-15 Hirato, Y.,Goto, M.,Mizobuchi, T.,Muramatsu, H.,Tanigawa, M.,Nishimura, K. Structure of pyridoxal 5'-phosphate-bound D-threonine aldolase from Chlamydomonas reinhardtii. Acta Crystallogr.,Sect.F 2023 79 31 37 7XLL 36732053 Alanine racemase from Lactobacillus sakei Uonuma-1. 2022-04-22 2023-03-01 Shimizu-Ibuka, A.,Sato, A.,Ichimura, H.,Hiraga, H.,Nakayama, S.,Nishiwaki, T. Regulation of alanine racemase activity by carboxylates and the d-type substrate d-alanine. Febs J. 2023 290 2954 2967 7YU1 36799721 Structure of 6-aminohexanoate-oligomer hydrolase NylC precursor, D122G/H130Y/T267C mutant 2022-08-16 2023-03-01 Negoro, S.,Shibata, N.,Kato, D.I.,Tanaka, Y.,Yasuhira, K.,Nagai, K.,Oshima, S.,Furuno, Y.,Yokoyama, R.,Miyazaki, K.,Takeo, M.,Hengphasatporn, K.,Shigeta, Y.,Lee, Y.H.,Higuchi, Y. X-ray crystallographic and mutational analysis of the NylC precursor: catalytic mechanism of autocleavage and substrate hydrolysis of nylon hydrolase. Febs J. 2023 290 3400 3421 7XE5 35755825 T4 lysozyme mutant-S44C/C54T/N68C/A93C/C97A/T115C, pH4 2022-03-30 2023-03-22 Hiromoto, T.,Ikura, T.,Honjo, E.,Blaber, M.,Kuroki, R.,Tamada, T. Creation of Cross-Linked Crystals With Intermolecular Disulfide Bonds Connecting Symmetry-Related Molecules Allows Retention of Tertiary Structure in Different Solvent Conditions. Front Mol Biosci 2022 9 908394 908394 7XE6 35755825 T4 lysozyme mutant-S44C/C54T/N68C/A93C/C97A/T115C, pH7 2022-03-30 2023-03-22 Hiromoto, T.,Ikura, T.,Honjo, E.,Blaber, M.,Kuroki, R.,Tamada, T. Creation of Cross-Linked Crystals With Intermolecular Disulfide Bonds Connecting Symmetry-Related Molecules Allows Retention of Tertiary Structure in Different Solvent Conditions. Front Mol Biosci 2022 9 908394 908394 7XE7 35755825 T4 lysozyme mutant-S44C/C54T/N68C/A93C/C97A/T115C, pH10 2022-03-30 2023-03-22 Hiromoto, T.,Ikura, T.,Honjo, E.,Blaber, M.,Kuroki, R.,Tamada, T. Creation of Cross-Linked Crystals With Intermolecular Disulfide Bonds Connecting Symmetry-Related Molecules Allows Retention of Tertiary Structure in Different Solvent Conditions. Front Mol Biosci 2022 9 908394 908394 8I8S 36914375 Crystal structure of human MTH1(G2K mutant) in complex with 8-oxo-dGMP and Mn2+ 2023-02-05 2023-03-22 Nakamura, T.,Koga-Ogawa, Y.,Fujimiya, K.,Chirifu, M.,Goto, M.,Ikemizu, S.,Nakabeppu, Y.,Yamagata, Y. Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition. Febs Lett. 2023 597 1770 1778 7XEQ NifS with D-cysteine 2022-03-31 2023-04-05 Nakamura, R.,Takahashi, Y.,Fujishiro, T. X-ray crystallographic snapshots of the thioazolidine formation upon the PLP during inhibition of SufS by D-cysteine to be published 0 0 0 0 7XES NifS with L-penicillamine 2022-03-31 2023-04-05 Nakamura, R.,Takahashi, Y.,Fujishiro, T. X-ray crystallographic snapshots of the thioazolidine formation upon the PLP during inhibition of SufS by D-cysteine to be published 0 0 0 0 7XET SufS with beta-cyano-L-alanine 2022-03-31 2023-04-05 Nakamura, R.,Takahashi, Y.,Fujishiro, T. Inhibition mechanism of SufS by L-propargylglycine to be published 0 0 0 0 8HYH 36918121 Structure of amino acid dehydrogenase3448 2023-01-06 2023-04-05 Maeno, M.,Ohmori, T.,Nukada, D.,Sakuraba, H.,Satomura, T.,Ohshima, T. Two different alanine dehydrogenases from Geobacillus kaustophilus: Their biochemical characteristics and differential expression in vegetative cells and spores. Biochim Biophys Acta Proteins 2023 1871 140904 140904 7XTX High resolution crystal structure of human macrophage migration inhibitory factor in complex with methotrexate 2022-05-18 2023-05-24 Sugishima, K.,Kariya, Y.,Ezawa, T.,Nagatoishi, S.,Tsumoto, K.,Shigeta, Y.,Noguchi, K.,Yohda, M.,Odaka, M.,Wakui, H.,Matsumura, H. Identification of methotrexate as an inhibitor of macrophage migration inhibitory factor by high-resolution crystal structure analysis To Be Published 0 0 0 0 7XLD 37330175 Crystal structure of IsdH linker-NEAT3 bound to a nanobody (VHH) 2022-04-21 2023-05-31 Valenciano-Bellido, S.,Caaveiro, J.M.M.,Nakakido, M.,Kuroda, D.,Aikawa, C.,Nakagawa, I.,Tsumoto, K. Targeting hemoglobin receptors IsdH and IsdB of Staphylococcus aureus with a single VHH antibody inhibits bacterial growth. J.Biol.Chem. 2023 299 104927 104927 7XSY Ligand free structure of branching enzyme isoform 3 (BE3) from Crocosphaera subtropica ATCC 51142 2022-05-15 2023-06-07 Tamura, T.,Suzuki, E.,Suzuki, R. Ligand free structure of branching enzyme isoform 3 (BE3) from Crocosphaera subtropica ATCC 51142 To be published 0 0 0 0 7YL4 36602978 Cell surface protein YwfG protein (apo form) 2022-07-25 2023-06-07 Tsuchiya, W.,Fujimoto, Z.,Inagaki, N.,Nakagawa, H.,Tanaka, M.,Kimoto-Nira, H.,Yamazaki, T.,Suzuki, C. Cell-surface protein YwfG of Lactococcus lactis binds to alpha-1,2-linked mannose. Plos One 2023 18 0 0 7YL5 36602978 Cell surface protein YwfG protein complexed with mannose 2022-07-25 2023-06-07 Tsuchiya, W.,Fujimoto, Z.,Inagaki, N.,Nakagawa, H.,Tanaka, M.,Kimoto-Nira, H.,Yamazaki, T.,Suzuki, C. Cell-surface protein YwfG of Lactococcus lactis binds to alpha-1,2-linked mannose. Plos One 2023 18 0 0 7YL6 36602978 Cell surface protein YwfG protein complexed with alpha-1,2-mannobiose 2022-07-25 2023-06-07 Tsuchiya, W.,Fujimoto, Z.,Inagaki, N.,Nakagawa, H.,Tanaka, M.,Kimoto-Nira, H.,Yamazaki, T.,Suzuki, C. Cell-surface protein YwfG of Lactococcus lactis binds to alpha-1,2-linked mannose. Plos One 2023 18 0 0 7XYY 37770719 TRIM E3 ubiquitin ligase WT 2022-06-02 2023-07-12 Park, S.H.,Han, J.,Jeong, B.C.,Song, J.H.,Jang, S.H.,Jeong, H.,Kim, B.H.,Ko, Y.G.,Park, Z.Y.,Lee, K.E.,Hyun, J.,Song, H.K. Structure and activation of the RING E3 ubiquitin ligase TRIM72 on the membrane. Nat.Struct.Mol.Biol. 2023 30 1695 1706 8IC7 37726269 exo-beta-D-arabinofuranosidase ExoMA2 from Microbacterium arabinogalactanolyticum in complex with beta-D-arabinofuranose 2023-02-11 2023-08-16 Shimokawa, M.,Ishiwata, A.,Kashima, T.,Nakashima, C.,Li, J.,Fukushima, R.,Sawai, N.,Nakamori, M.,Tanaka, Y.,Kudo, A.,Morikami, S.,Iwanaga, N.,Akai, G.,Shimizu, N.,Arakawa, T.,Yamada, C.,Kitahara, K.,Tanaka, K.,Ito, Y.,Fushinobu, S.,Fujita, K. Identification and characterization of endo-alpha-, exo-alpha-, and exo-beta-D-arabinofuranosidases degrading lipoarabinomannan and arabinogalactan of mycobacteria. Nat Commun 2023 14 5803 5803 8IC8 37726269 Exo-alpha-D-arabinofuranosidase from Microbacterium arabinogalactanolyticum 2023-02-11 2023-08-16 Shimokawa, M.,Ishiwata, A.,Kashima, T.,Nakashima, C.,Li, J.,Fukushima, R.,Sawai, N.,Nakamori, M.,Tanaka, Y.,Kudo, A.,Morikami, S.,Iwanaga, N.,Akai, G.,Shimizu, N.,Arakawa, T.,Yamada, C.,Kitahara, K.,Tanaka, K.,Ito, Y.,Fushinobu, S.,Fujita, K. Identification and characterization of endo-alpha-, exo-alpha-, and exo-beta-D-arabinofuranosidases degrading lipoarabinomannan and arabinogalactan of mycobacteria. Nat Commun 2023 14 5803 5803 8H7D 37695900 Crystal structure of a de novo enzyme, ferric enterobactin esterase Syn-F4 (K4T) 2022-10-19 2023-09-20 Kurihara, K.,Umezawa, K.,Donnelly, A.E.,Sperling, B.,Liao, G.,Hecht, M.H.,Arai, R. Crystal structure and activity of a de novo enzyme, ferric enterobactin esterase Syn-F4. Proc.Natl.Acad.Sci.USA 2023 120 0 0 8H64 37716701 Crystal structure of Internalin A from Listeria monocytogenes with nanobody VHH24 bound 2022-10-15 2023-10-04 Yamazaki, T.,Nagatoishi, S.,Yamawaki, T.,Nozawa, T.,Matsunaga, R.,Nakakido, M.,Caaveiro, J.M.M.,Nakagawa, I.,Tsumoto, K. Anti-InlA single-domain antibodies that inhibit the cell invasion of Listeria monocytogenes. J.Biol.Chem. 2023 299 105254 105254 8HHP Crystal structure of PPARg-LBD complexed with three partial agonists, one nTZDpa and two LT175 2022-11-16 2023-11-22 Kojima, H.,Yanagi, R.,Higuchi, E.,Yoshizawa, M.,Shimodaira, T.,Kumagai, M.,Egawa, D.,Ohashi, N.,Ishida, H.,Yamamoto, K.,Itoh, T. Covalent Modifier Discovery by Hydrogen/Deuterium Exchange Mass Spectrometry (HDX-MS) To Be Published 0 0 0 0 8HVC Crystal structure of lacto-N-biosidase StrLNBase from Streptomyces sp. strain 142, galacto-N-biose complex 1 2022-12-26 2023-12-27 Fujio, N.,Yamada, C.,Fushinobu, S. Crystal structure of glycoside hydrolase family 20 lacto-N-biosidase from soil bacterium Streptomyces sp. strain 142 to be published 0 0 0 0 8HVD Crystal structure of lacto-N-biosidase StrLNBase from Streptomyces sp. strain 142, galacto-N-biose complex 2 2022-12-26 2023-12-27 Fujio, N.,Yamada, C.,Fushinobu, S. Crystal structure of glycoside hydrolase family 20 lacto-N-biosidase from soil bacterium Streptomyces sp. strain 142 to be published 0 0 0 0 8IGI 37116395 Crystal structure of HP1526 (XthA)- a base excision DNA repair protein in Helicobacter pylori 2023-02-20 2023-12-27 Dinh, T.,Dao, O.,Killivalavan, A.,Ngo, D.,Lee, K.H. Crystal structure of the apurinic/apyrimidinic endonuclease XthA (HP1526 protein) from Helicobacter pylori. Biochem.Biophys.Res.Commun. 2023 663 8 15 8I55 Wild-type CfbA at 1.99 angstrom resolution 2023-01-24 2024-01-31 Ogawa, S.,Hikita, M.,Fujishiro, T. Substrate selectivity of CfbA To be published 0 0 0 0 7YL8 Neutron structure of Bacillus thermoproteolyticus Ferredoxin at room temperature 2022-07-25 2024-02-07 Wada, K.,Kobayashi, K.,Era, I.,Isobe, Y.,Kamimura, T.,Murakawa, M.,Sugishima, M.,Kusaka, K.,Yano, N.,Fukuyama, K.,Mishima, M.,Kitagawa, Y.,Unno, M. Protonation/deprotonation-driven switch for the redox stability of the low-potential [4Fe-4S] ferredoxin To Be Published 0 0 0 0 7YL8 Neutron structure of Bacillus thermoproteolyticus Ferredoxin at room temperature 2022-07-25 2024-02-07 Wada, K.,Kobayashi, K.,Era, I.,Isobe, Y.,Kamimura, T.,Murakawa, M.,Sugishima, M.,Kusaka, K.,Yano, N.,Fukuyama, K.,Mishima, M.,Kitagawa, Y.,Unno, M. Protonation/deprotonation-driven switch for the redox stability of the low-potential [4Fe-4S] ferredoxin To Be Published 0 0 0 0 8IAY Crystal structure of canine distemper virus hemagglutinin 2023-02-09 2024-02-07 Fukuhara, H.,Yumoto, K.,Sako, M.,Kajikawa, M.,Ose, T.,Kawamura, M.,Yoda, M.,Chen, S.,Ito, Y.,Takeda, S.,Mwaba, M.H.,Wang, J.,Hashiguchi, T.,Kamishikiryo, J.,Maita, N.,Kitatsuji, C.,Takeda, M.,Kuroki, K.,Maenaka, K. Glycan-shielded homodimer structure and dynamical features of the canine distemper virus hemagglutinin relevant for viral entry and efficient vaccination Elife 2024 0 0 0 8IMR Structure of ligand-free human macrophage migration inhibitory factor 2023-03-07 2024-03-13 Sugishima, K.,Kariya, Y.,Ezawa, T.,Nagatoishi, S.,Tsumoto, K.,Shigeta, Y.,Noguchi, K.,Yohda, M.,Odaka, M.,Wakui, H.,Matsumura, H. Identification of methotrexate as an inhibitor of macrophage migration inhibitory factor by high-resolution crystal structure analysis To Be Published 0 0 0 0 8JQ3 38430263 Crystal structure of L-rhamnose isomerase from Lactobacillus rhamnosus 2023-06-13 2024-03-13 Yoshida, H.,Yamamoto, N.,Kurahara, L.H.,Izumori, K.,Yoshihara, A. X-ray structure and characterization of a probiotic Lactobacillus rhamnosus Probio-M9 L-rhamnose isomerase. Appl.Microbiol.Biotechnol. 2024 108 249 249 8JQ4 38430263 Crystal structure of Lactobacillus rhamnosus L-rhamnose isomerase in complex with L-rhamnose 2023-06-13 2024-03-13 Yoshida, H.,Yamamoto, N.,Kurahara, L.H.,Izumori, K.,Yoshihara, A. X-ray structure and characterization of a probiotic Lactobacillus rhamnosus Probio-M9 L-rhamnose isomerase. Appl.Microbiol.Biotechnol. 2024 108 249 249 8JQ5 38430263 Crystal structure of Lactobacillus rhamnosus L-rhamnose isomerase in complex with D-allulose 2023-06-13 2024-03-13 Yoshida, H.,Yamamoto, N.,Kurahara, L.H.,Izumori, K.,Yoshihara, A. X-ray structure and characterization of a probiotic Lactobacillus rhamnosus Probio-M9 L-rhamnose isomerase. Appl.Microbiol.Biotechnol. 2024 108 249 249 8JQ6 38430263 Crystal structure of Lactobacillus rhamnosus L-rhamnose isomerase in complex with D-allose 2023-06-13 2024-03-13 Yoshida, H.,Yamamoto, N.,Kurahara, L.H.,Izumori, K.,Yoshihara, A. X-ray structure and characterization of a probiotic Lactobacillus rhamnosus Probio-M9 L-rhamnose isomerase. Appl.Microbiol.Biotechnol. 2024 108 249 249