PDB_ID PUBMED_CID STRUCTURE TITLE DEPOSITION DATE RELEASE DATE AUTHORS CITATION TITLE JOURNAL YEAR VOLUME FIRST PAGE LAST PAGE 1B5X 10350481 Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and x-ray analysis of six ser->ala mutants 1999-01-11 1999-01-20 Takano, K.,Yamagata, Y.,Kubota, M.,Funahashi, J.,Fujii, S.,Yutani, K. Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six Ser --> Ala mutants. Biochemistry 1999 38 6623 6629 1B7S 10469827 VERIFICATION OF SPMP USING MUTANT HUMAN LYSOZYMES 1999-01-25 1999-02-02 Takano, K.,Ota, M.,Ogasahara, K.,Yamagata, Y.,Nishikawa, K.,Yutani, K. Experimental verification of the 'stability profile of mutant protein' (SPMP) data using mutant human lysozymes. Protein Eng. 1999 12 663 672 1DI3 10913274 ROLE OF AMINO ACID RESIDUES AT TURNS IN THE CONFORMATIONAL STABILITY AND FOLDING OF HUMAN LYSOZYME 1999-11-28 1999-12-08 Takano, K.,Yamagata, Y.,Yutani, K. Role of amino acid residues at turns in the conformational stability and folding of human lysozyme. Biochemistry 2000 39 8655 8665 1H2R 10378274 THREE-DIMENSIONAL STRUCTURE OF NI-FE HYDROGENASE FROM DESULFIVIBRIO VULGARIS MIYAZAKI F IN THE REDUCED FORM AT 1.4 A RESOLUTION 1999-06-14 2000-01-05 Higuchi, Y.,Ogata, H.,Miki, K.,Yasuoka, N.,Yagi, T. Removal of the bridging ligand atom at the Ni-Fe active site of [NiFe] hydrogenase upon reduction with H2, as revealed by X-ray structure analysis at 1.4 A resolution. Structure Fold.Des. 1999 7 549 556 1B7Y 10092459 PHENYLALANYL TRNA SYNTHETASE COMPLEXED WITH PHENYLALANINYL-ADENYLATE 1999-01-26 2000-01-26 Reshetnikova, L.,Moor, N.,Lavrik, O.,Vassylyev, D.G. Crystal structures of phenylalanyl-tRNA synthetase complexed with phenylalanine and a phenylalanyl-adenylate analogue. J.Mol.Biol. 1999 287 555 568 1DIO 10467140 DIOL DEHYDRATASE-CYANOCOBALAMIN COMPLEX FROM KLEBSIELLA OXYTOCA 1999-01-27 2000-01-30 Shibata, N.,Masuda, J.,Tobimatsu, T.,Toraya, T.,Suto, K.,Morimoto, Y.,Yasuoka, N. A new mode of B12 binding and the direct participation of a potassium ion in enzyme catalysis: X-ray structure of diol dehydratase. Structure Fold.Des. 1999 7 997 1008 1B70 10092459 PHENYLALANYL TRNA SYNTHETASE COMPLEXED WITH PHENYLALANINE 1999-01-26 2000-02-09 Reshetnikova, L.,Moor, N.,Lavrik, O.,Vassylyev, D.G. Crystal structures of phenylalanyl-tRNA synthetase complexed with phenylalanine and a phenylalanyl-adenylate analogue J.Mol.Biol. 1999 287 555 568 1C0G 10669610 CRYSTAL STRUCTURE OF 1:1 COMPLEX BETWEEN GELSOLIN SEGMENT 1 AND A DICTYOSTELIUM/TETRAHYMENA CHIMERA ACTIN (MUTANT 228: Q228K/T229A/A230Y/E360H) 1999-07-16 2000-03-01 Matsuura, Y.,Stewart, M.,Kawamoto, M.,Kamiya, N.,Saeki, K.,Yasunaga, T.,Wakabayashi, T. Structural basis for the higher Ca(2+)-activation of the regulated actin-activated myosin ATPase observed with Dictyostelium/Tetrahymena actin chimeras. J.Mol.Biol. 2000 296 579 595 1CD9 10537111 2:2 COMPLEX OF G-CSF WITH ITS RECEPTOR 1999-03-08 2000-03-08 Aritomi, M.,Kunishima, N.,Okamoto, T.,Kuroki, R.,Ota, Y.,Morikawa, K. Atomic structure of the GCSF-receptor complex showing a new cytokine-receptor recognition scheme. Nature 1999 401 713 717 1D2M 10578047 UVRB PROTEIN OF THERMUS THERMOPHILUS HB8; A NUCLEOTIDE EXCISION REPAIR ENZYME 1999-09-25 2000-03-22 Nakagawa, N.,Sugahara, M.,Masui, R.,Kato, R.,Fukuyama, K.,Kuramitsu, S. Crystal structure of Thermus thermophilus HB8 UvrB protein, a key enzyme of nucleotide excision repair. J.Biochem.(Tokyo) 1999 126 986 990 1DVE 10760513 CRYSTAL STRUCTURE OF RAT HEME OXYGENASE-1 IN COMPLEX WITH HEME 2000-01-20 2000-04-12 Sugishima, M.,Omata, Y.,Kakuta, Y.,Sakamoto, H.,Noguchi, M.,Fukuyama, K. Crystal structure of rat heme oxygenase-1 in complex with heme. FEBS Lett. 2000 471 61 66 1DVG 10760513 CRYSTAL STRUCTURE OF RAT HEME OXYGENASE-1 IN COMPLEX WITH HEME; SELELENO-METHIONINE DERIVATIVE, MUTATED AT M51T,M93L,M155L,M191L. 2000-01-20 2000-04-12 Sugishima, M.,Omata, Y.,Kakuta, Y.,Sakamoto, H.,Noguchi, M.,Fukuyama, K. Crystal structure of rat heme oxygenase-1 in complex with heme. FEBS Lett. 2000 471 61 66 1F4Z 10903866 BACTERIORHODOPSIN-M PHOTOINTERMEDIATE STATE OF THE E204Q MUTANT AT 1.8 ANGSTROM RESOLUTION 2000-06-10 2000-08-09 Luecke, H.,Schobert, B.,Cartailler, J.P.,Richter, H.T.,Rosengarth, A.,Needleman, R.,Lanyi, J.K. Coupling photoisomerization of retinal to directional transport in bacteriorhodopsin. J.Mol.Biol. 2000 300 1237 1255 1F50 10903866 BACTERIORHODOPSIN-BR STATE OF THE E204Q MUTANT AT 1.7 ANGSTROM RESOLUTION 2000-06-10 2000-08-09 Luecke, H.,Schobert, B.,Cartailler, J.P.,Richter, H.T.,Rosengarth, A.,Needleman, R.,Lanyi, J.K. Coupling photoisomerization of retinal to directional transport in bacteriorhodopsin. J.Mol.Biol. 2000 300 1237 1255 1EGM 10903944 CRYSTAL STRUCTURE OF DIOL DEHYDRATASE-CYANOCOBALAMIN COMPLEX AT 100K. 2000-02-15 2000-09-20 Masuda, J.,Shibata, N.,Morimoto, Y.,Toraya, T.,Yasuoka, N. How a protein generates a catalytic radical from coenzyme B(12): X-ray structure of a diol-dehydratase-adeninylpentylcobalamin complex. Structure Fold.Des. 2000 8 775 788 1EVI 10876160 THREE-DIMENSIONAL STRUCTURE OF THE PURPLE INTERMEDIATE OF PORCINE KIDNEY D-AMINO ACID OXIDASE 2000-04-20 2000-10-23 Mizutani, H.,Miyahara, I.,Hirotsu, K.,Nishina, Y.,Shiga, K.,Setoyama, C.,Miura, R. Three-dimensional structure of the purple intermediate of porcine kidney D-amino acid oxidase. Optimization of the oxidative half-reaction through alignment of the product with reduced flavin. J.Biochem.(Tokyo) 2000 128 73 81 1G6L 11170214 1.9A CRYSTAL STRUCTURE OF TETHERED HIV-1 PROTEASE 2000-11-07 2000-11-15 Pillai, B.,Kannan, K.K.,Hosur, M.V. 1.9 A x-ray study shows closed flap conformation in crystals of tethered HIV-1 PR. Proteins 2001 43 57 564 1G6L 11170214 1.9A CRYSTAL STRUCTURE OF TETHERED HIV-1 PROTEASE 2000-11-07 2000-11-15 Pillai, B.,Kannan, K.K.,Hosur, M.V. 1.9 A x-ray study shows closed flap conformation in crystals of tethered HIV-1 PR. Proteins 2001 43 57 564 1GAX 11114335 CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE 2000-06-23 2000-12-06 Fukai, S.,Nureki, O.,Sekine, S.,Shimada, A.,Tao, J.,Vassylyev, D.G.,Yokoyama, S. Structural basis for double-sieve discrimination of L-valine from L-isoleucine and L-threonine by the complex of tRNA(Val) and valyl-tRNA synthetase. Cell(Cambridge,Mass.) 2000 103 793 803 1EYS 11095707 CRYSTAL STRUCTURE OF PHOTOSYNTHETIC REACTION CENTER FROM A THERMOPHILIC BACTERIUM, THERMOCHROMATIUM TEPIDUM 2000-05-08 2000-12-13 Nogi, T.,Fathir, I.,Kobayashi, M.,Nozawa, T.,Miki, K. Crystal structures of photosynthetic reaction center and high-potential iron-sulfur protein from Thermochromatium tepidum: thermostability and electron transfer. Proc.Natl.Acad.Sci.USA 2000 97 13561 13566 1GAQ 11175898 CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN FERREDOXIN AND FERREDOXIN-NADP+ REDUCTASE 2000-05-08 2001-02-07 Kurisu, G.,Kusunoki, M.,Katoh, E.,Yamazaki, T.,Teshima, K.,Onda, Y.,Kimata-Ariga, Y.,Hase, T. Structure of the electron transfer complex between ferredoxin and ferredoxin-NADP(+) reductase. Nat.Struct.Biol. 2001 8 117 121 1HJB 11257229 CRYSTAL STRUCTURE OF RUNX-1/AML1/CBFALPHA RUNT DOMAIN AND C/EBPBETA BZIP HOMODIMER BOUND TO A DNA FRAGMENT FROM THE CSF-1R PROMOTER 2001-01-11 2001-03-09 Tahirov, T.H.,Inoue-Bungo, T.,Morii, H.,Fujikawa, A.,Sasaki, M.,Kimura, K.,Shiina, M.,Sato, K.,Kumasaka, T.,Yamamoto, M.,Ishii, S.,Ogata, K. Structural Analyses of DNA Recognition by the Aml1/Runx-1 Runt Domain and its Allosteric Control by Cbfbeta Cell(Cambridge,Mass.) 2001 104 755 0 1G1Y 11226882 CRYSTAL STRUCTURE OF ALPHA-AMYLASE II (TVAII) FROM THERMOACTINOMYCES VULGARIS R-47 AND BETA-CYCLODEXTRIN COMPLEX 2000-10-16 2001-03-14 Kondo, S.,Ohtaki, A.,Tonozuka, T.,Sakano, Y.,Kamitori, S. Studies on the hydrolyzing mechanism for cyclodextrins of Thermoactinomyces vulgaris R-47 alpha-amylase 2 (TVAII). X-ray structure of the mutant E354A complexed with beta-cyclodextrin, and kinetic analyses on cyclodextrins. J.Biochem.(Tokyo) 2001 129 423 428 1G3Q 11296216 CRYSTAL STRUCTURE ANALYSIS OF PYROCOCCUS FURIOSUS CELL DIVISION ATPASE MIND 2000-10-25 2001-04-21 Hayashi, I.,Oyama, T.,Morikawa, K. Structural and functional studies of MinD ATPase: implications for the molecular recognition of the bacterial cell division apparatus. EMBO J. 2001 20 1819 1828 1GCQ 11406576 CRYSTAL STRUCTURE OF VAV AND GRB2 SH3 DOMAINS 2000-08-08 2001-08-08 Nishida, M.,Nagata, K.,Hachimori, Y.,Horiuchi, M.,Ogura, K.,Mandiyan, V.,Schlessinger, J.,Inagaki, F. Novel recognition mode between Vav and Grb2 SH3 domains. EMBO J. 2001 20 2995 3007 1ION 11566131 THE SEPTUM SITE-DETERMINING PROTEIN MIND COMPLEXED WITH MG-ADP FROM PYROCOCCUS HORIKOSHII OT3 2001-03-21 2001-09-26 Sakai, N.,Yao, M.,Itou, H.,Watanabe, N.,Yumoto, F.,Tanokura, M.,Tanaka, I. The three-dimensional structure of septum site-determining protein MinD from Pyrococcus horikoshii OT3 in complex with Mg-ADP. Structure 2001 9 817 826 1IQ0 11698642 THERMUS THERMOPHILUS ARGINYL-TRNA SYNTHETASE 2001-05-24 2001-11-28 Shimada, A.,Nureki, O.,Goto, M.,Takahashi, S.,Yokoyama, S. Structural and mutational studies of the recognition of the arginine tRNA-specific major identity element, A20, by arginyl-tRNA synthetase. Proc.Natl.Acad.Sci.USA 2001 98 13537 13542 1IR0 11827483 OXIDIZED [4Fe-4S] FERREDOXIN FROM BACILLUS THERMOPROTEOLYTICUS (FORM II) 2001-08-30 2002-02-13 Fukuyama, K.,Okada, T.,Kakuta, Y.,Takahashi, Y. Atomic resolution structures of oxidized [4Fe-4S] ferredoxin from Bacillus thermoproteolyticus in two crystal forms: systematic distortion of [4Fe-4S] cluster in the protein. J.Mol.Biol. 2002 315 1155 1166 1IS7 11818540 Crystal structure of rat GTPCHI/GFRP stimulatory complex 2001-11-18 2002-02-20 Maita, N.,Okada, K.,Hatakeyama, K.,Hakoshima, T. Crystal structure of the stimulatory complex of GTP cyclohydrolase I and its feedback regulatory protein GFRP. Proc.Natl.Acad.Sci.USA 2002 99 1212 1217 1IS8 11818540 Crystal structure of rat GTPCHI/GFRP stimulatory complex plus Zn 2001-11-18 2002-02-20 Maita, N.,Okada, K.,Hatakeyama, K.,Hakoshima, T. Crystal structure of the stimulatory complex of GTP cyclohydrolase I and its feedback regulatory protein GFRP. Proc.Natl.Acad.Sci.USA 2002 99 1212 1217 1I7H 11551196 CRYSTAL STURCUTURE OF FDX 2001-03-09 2002-03-09 Kakuta, Y.,Horio, T.,Takahashi, Y.,Fukuyama, K. Crystal structure of Escherichia coli Fdx, an adrenodoxin-type ferredoxin involved in the assembly of iron-sulfur clusters. Biochemistry 2001 40 11007 11012 1ITX Catalytic Domain of Chitinase A1 from Bacillus circulans WL-12 2002-02-13 2002-03-13 Matsumoto, T.,Nonaka, T.,Hashimoto, M.,Watanabe, T.,Mitsui, Y. Three-dimensional structure of the catalytic domain of chitinase A1 from Bacillus circulans WL-12 at a very high resolution PROC.JPN.ACAD.,SER.B 1999 75 269 274 1ISN 11756419 Crystal structure of merlin FERM domain 2001-12-13 2002-04-03 Shimizu, T.,Seto, A.,Maita, N.,Hamada, K.,Tsukita, S.,Tsukita, S.,Hakoshima, T. Structural basis for neurofibromatosis type 2. Crystal structure of the merlin FERM domain. J.Biol.Chem. 2002 277 10332 10336 1KH1 11844799 Crystal Structure of Thermus thermophilus HB8 Argininosuccinate Synthetase 2001-11-29 2002-04-03 Goto, M.,Nakajima, Y.,Hirotsu, K. Crystal structure of argininosuccinate synthetase from Thermus thermophilus HB8. Structural basis for the catalytic action. J.Biol.Chem. 2002 277 15890 15896 1IS2 11872165 Crystal Structure of Peroxisomal Acyl-CoA Oxidase-II from Rat Liver 2001-11-07 2002-04-10 Nakajima, Y.,Miyahara, I.,Hirotsu, K.,Nishina, Y.,Shiga, K.,Setoyama, C.,Tamaoki, H.,Miura, R. Three-dimensional structure of the flavoenzyme acyl-CoA oxidase-II from rat liver, the peroxisomal counterpart of mitochondrial acyl-CoA dehydrogenase. J.Biochem. 2002 131 365 374 1IRX 11887185 Crystal structure of class I lysyl-tRNA synthetase 2001-10-25 2002-04-17 Terada, T.,Nureki, O.,Ishitani, R.,Ambrogelly, A.,Ibba, M.,Soll, D.,Yokoyama, S. Functional convergence of two lysyl-tRNA synthetases with unrelated topologies. Nat.Struct.Biol. 2002 9 257 262 1IR6 11972066 Crystal structure of exonuclease RecJ bound to manganese 2001-09-11 2002-05-15 Yamagata, A.,Kakuta, Y.,Masui, R.,Fukuyama, K. The crystal structure of exonuclease RecJ bound to Mn2+ ion suggests how its characteristic motifs are involved in exonuclease activity. Proc.Natl.Acad.Sci.USA 2002 99 5908 5912 1L9H 11972040 Crystal structure of bovine rhodopsin at 2.6 angstroms RESOLUTION 2002-03-23 2002-05-15 Okada, T.,Fujiyoshi, Y.,Silow, M.,Navarro, J.,Landau, E.M.,Shichida, Y. Functional role of internal water molecules in rhodopsin revealed by X-ray crystallography. Proc.Natl.Acad.Sci.USA 2002 99 5982 5987 1IRU 12015144 Crystal Structure of the mammalian 20S proteasome at 2.75 A resolution 2001-10-24 2002-05-22 Unno, M.,Mizushima, T.,Morimoto, Y.,Tomisugi, Y.,Tanaka, K.,Yasuoka, N.,Tsukihara, T. The structure of the mammalian 20S proteasome at 2.75 A resolution. Structure 2002 10 609 618 1IPA 12077432 CRYSTAL STRUCTURE OF RNA 2'-O RIBOSE METHYLTRANSFERASE 2001-05-02 2002-07-10 Nureki, O.,Shirouzu, M.,Hashimoto, K.,Ishitani, R.,Terada, T.,Tamakoshi, M.,Oshima, T.,Chijimatsu, M.,Takio, K.,Vassylyev, D.G.,Shibata, T.,Inoue, Y.,Kuramitsu, S.,Yokoyama, S. An enzyme with a deep trefoil knot for the active-site architecture. Acta Crystallogr.,Sect.D 2002 58 1129 1137 1IRM 12044160 Crystal structure of apo heme oxygenase-1 2001-10-09 2002-07-10 Sugishima, M.,Sakamoto, H.,Kakuta, Y.,Omata, Y.,Hayashi, S.,Noguchi, M.,Fukuyama, K. Crystal structure of rat apo-heme oxygenase-1 (HO-1): mechanism of heme binding in HO-1 inferred from structural comparison of the apo and heme complex forms Biochemistry 2002 41 7293 7300 1JVS 11872159 Crystal structure of 1-deoxy-D-xylulose 5-phosphate reductoisomerase; a target enzyme for antimalarial drugs 2001-08-31 2002-10-09 Yajima, S.,Nonaka, T.,Kuzuyama, T.,Seto, H.,Ohsawa, K. 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Cell(Cambridge,Mass.) 2002 110 775 787 1ITW 12467571 Crystal structure of the monomeric isocitrate dehydrogenase in complex with isocitrate and Mn 2002-02-12 2002-12-11 Yasutake, Y.,Watanabe, S.,Yao, M.,Takada, Y.,Fukunaga, N.,Tanaka, I. Structure of the Monomeric Isocitrate Dehydrogenase: Evidence of a Protein Monomerization by a Domain Duplication Structure 2002 10 1637 1648 1IW6 12445782 Crystal Structure of the Ground State of Bacteriorhodopsin 2002-04-22 2002-12-11 Matsui, Y.,Sakai, K.,Murakami, M.,Shiro, Y.,Adachi, S.,Okumura, H.,Kouyama, T. Specific Damage Induced by X-ray Radiation and Structural Changes in the Primary Photoreaction of Bacteriorhodopsin. J.Mol.Biol. 2002 324 469 481 1IZL 12518057 Crystal Structure of Photosystem II 2002-10-04 2003-01-14 Kamiya, N.,Shen, J.-R. 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Crystallographic analysis of primary visual photochemistry Angew.Chem.Int.Ed.Engl. 2006 45 4270 4273 2CV2 17161369 Glutamyl-tRNA synthetase from Thermus thermophilus in complex with tRNA(Glu) and an enzyme inhibitor, Glu-AMS 2005-05-31 2006-09-05 Sekine, S.,Shichiri, M.,Bernier, S.,Chenevert, R.,Lapointe, J.,Yokoyama, S. Structural bases of transfer RNA-dependent amino acid recognition and activation by glutamyl-tRNA synthetase Structure 2006 14 1791 1799 2HVY 16943774 Crystal structure of an H/ACA box RNP from Pyrococcus furiosus 2006-07-31 2006-09-12 Li, L.,Ye, K. Crystal structure of an H/ACA box ribonucleoprotein particle Nature 2006 443 302 307 2DVU Crystal Structure of 2,6-Dihydroxybenzoate Decarboxylase Complexed with 2,6-Dihydroxybenzoate 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 2DVX Crystal Structure of 2,6-Dihydroxybenzoate Decarboxylase Complexed with inhibitor 2,3-dihydroxybenzaldehyde 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 2D6N 16990264 Crystal structure of mouse galectin-9 N-terminal CRD in complex with N-acetyllactosamine 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 2DX5 17057714 The complex structure between the mouse EAP45-GLUE domain and ubiquitin 2006-08-24 2006-10-10 Hirano, S.,Suzuki, N.,Slagsvold, T.,Kawasaki, M.,Trambaiolo, D.,Kato, R.,Stenmark, H.,Wakatsuki, S. Structural basis of ubiquitin recognition by mammalian Eap45 GLUE domain Nat.Struct.Mol.Biol. 2006 13 1031 1032 2D5W The crystal structure of oligopeptide binding protein from Thermus thermophilus HB8 complexed with pentapeptide 2005-11-07 2006-10-17 Morita, A.,Sakai, N.,Yao, M.,Watanabe, N.,Tanaka, I. The crystal structure of oligopeptide binding protein from Thermus thermophilus HB8 complexed with pentapeptide To be Published 0 0 0 0 2DW5 17002273 Crystal structure of human peptidylarginine deiminase 4 in complex with N-alpha-benzoyl-N5-(2-fluoro-1-iminoethyl)-L-ornithine amide 2006-08-04 2006-10-17 Luo, Y.,Arita, K.,Bhatia, M.,Knuckley, B.,Lee, Y.H.,Stallcup, M.R.,Sato, M.,Thompson, P.R. Inhibitors and Inactivators of Protein Arginine Deiminase 4: Functional and Structural Characterization Biochemistry 2006 45 11727 11736 2D59 17342453 hypothetical protein from Pyrococcus horikoshii OT3 2005-10-31 2006-10-31 Hiyama, T.B.,Zhao, M.,Kitago, Y.,Yao, M.,Sekine, S.,Terada, T.,Kuroishi, C.,Liu, Z.J.,Rose, J.P.,Kuramitsu, S.,Shirouzu, M.,Watanabe, N.,Yokoyama, S.,Tanaka, I.,Wang, B.C. Structural basis of CoA recognition by the Pyrococcus single-domain CoA-binding proteins. 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Structural basis of efficient coupling between peptide ligation and ATP hydrolysis by gamma-gluatamylcysteine synthetase To be Published 0 0 0 0 2D4U 21979954 Crystal Structure of the ligand binding domain of the bacterial serine chemoreceptor Tsr 2005-10-24 2006-11-14 Tajima, H.,Imada, K.,Sakuma, M.,Hattori, F.,Nara, T.,Kamo, N.,Homma, M.,Kawagishi, I. Ligand specificity determined by differentially arranged common ligand-binding residues in the bacterial amino acid chemoreceptors Tsr and Tar. J.Biol.Chem. 2011 0 0 0 2D4W Crystal structure of glycerol kinase from Cellulomonas sp. NT3060 2005-10-24 2006-11-14 Imada, K.,Tamura, T.,Inagaki, K. Structure of glycerol kinase from Cellulomonas sp. NT3060 To be Published 0 0 0 0 2D4X Crystal structure of a 26K fragment of HAP3 (FlgL) 2005-10-25 2006-11-14 Imada, K.,Matsunami, H.,Yamane, M.,Samatey, A.F.,Nagashima, S.,Namba, K. Structure of the bacterial flagellar hook-filament junction To be Published 0 0 0 0 2D4Y Crystal structure of a 49K fragment of HAP1 (FlgK) 2005-10-25 2006-11-14 Imada, K.,Matsunami, H.,Yamane, M.,Samatey, A.F.,Nagashima, S.,Namba, K. Structure of the bacterial flagellar hook-filament junction To be Published 0 0 0 0 2D4Y Crystal structure of a 49K fragment of HAP1 (FlgK) 2005-10-25 2006-11-14 Imada, K.,Matsunami, H.,Yamane, M.,Samatey, A.F.,Nagashima, S.,Namba, K. Structure of the bacterial flagellar hook-filament junction To be Published 0 0 0 0 2DR7 17051158 Complex structure of CCA-adding enzyme with tRNAminiDC 2006-06-08 2006-11-14 Tomita, K.,Ishitani, R.,Fukai, S.,Nureki, O. Complete crystallographic analysis of the dynamics of CCA sequence addition Nature 2006 443 956 960 2DR8 17051158 Complex structure of CCA-adding enzyme with tRNAminiDC and CTP 2006-06-08 2006-11-14 Tomita, K.,Ishitani, R.,Fukai, S.,Nureki, O. Complete crystallographic analysis of the dynamics of CCA sequence addition Nature 2006 443 956 960 2DR9 17051158 Complex structure of CCA-adding enzyme with tRNAminiDCC 2006-06-08 2006-11-14 Tomita, K.,Ishitani, R.,Fukai, S.,Nureki, O. Complete crystallographic analysis of the dynamics of CCA sequence addition Nature 2006 443 956 960 2DRA 17051158 Complex structure of CCA-adding enzyme with tRNAminiDCC and ATP 2006-06-08 2006-11-14 Tomita, K.,Ishitani, R.,Fukai, S.,Nureki, O. Complete crystallographic analysis of the dynamics of CCA sequence addition Nature 2006 443 956 960 2DVI 17051158 Complex structure of CCA-adding enzyme, mini-DCC and CTP 2006-07-31 2006-11-14 Tomita, K.,Ishitani, R.,Fukai, S.,Nureki, O. Complete crystallographic analysis of the dynamics of CCA sequence addition Nature 2006 443 956 960 2D5M Flavoredoxin of Desulfovibrio vulgaris (Miyazaki F) 2005-11-02 2006-11-21 Ueda, Y.,Shibata, N.,Higuchi, Y. 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Crystal structure of the gamma-glutamyltranspeptidase precursor protein from Escherichia coli. Structural changes upon autocatalytic processing and implications for the maturation mechanism J.Biol.Chem. 2007 282 2433 2439 2EWK 18702516 The T24V mutant of tetraheme cytochrome c3 from Desulfovibrio Vulgaris Miyazaki F 2005-11-03 2006-11-28 Takayama, Y.,Werbeck, N.D.,Komori, H.,Morita, K.,Ozawa, K.,Higuchi, Y.,Akutsu, H. Strategic roles of axial histidines in structure formation and redox regulation of tetraheme cytochrome c3. Biochemistry 2008 47 9405 9415 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 2DPY 17202259 Crystal structure of the flagellar type III ATPase FliI 2006-05-18 2006-12-26 Imada, K.,Minamino, T.,Tahara, A.,Namba, K. Structural similarity between the flagellar type III ATPase FliI and F1-ATPase subunits Proc.Natl.Acad.Sci.Usa 2007 104 485 490 2DYM 17192262 The crystal structure of Saccharomyces cerevisiae Atg5- Atg16(1-46) complex 2006-09-15 2006-12-26 Matsushita, M.,Suzuki, N.N.,Obara, K.,Fujioka, Y.,Ohsumi, Y.,Inagaki, F. Structure of Atg5.Atg16, a complex essential for autophagy J.Biol.Chem. 2007 282 6763 6772 2DPS 17110926 Structure of Leucyl/phenylalanyl-tRNA-protein transferase 2006-05-14 2007-01-02 Suto, K.,Shimizu, Y.,Watanabe, K.,Ueda, T.,Fukai, S.,Nureki, O.,Tomita, K. 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The first crystal structure of L-threonine dehydrogenase. J.Mol.Biol. 2007 366 857 867 2E0K 17229157 Crystal structure of CbiL, a methyltransferase involved in anaerobic vitamin B12 biosynthesis 2006-10-10 2007-01-16 Wada, K.,Harada, J.,Yaeda, Y.,Tamiaki, H.,Oh-Oka, H.,Fukuyama, K. Crystal structures of CbiL, a methyltransferase involved in anaerobic vitamin B biosynthesis, and CbiL in complex with S-adenosylhomocysteine--implications for the reaction mechanism. Febs J. 2007 274 563 573 2E0N 17229157 Crystal structure of CbiL in complex with S-adenosylhomocysteine, a methyltransferase involved in anaerobic vitamin B12 biosynthesis 2006-10-10 2007-01-16 Wada, K.,Harada, J.,Yaeda, Y.,Tamiaki, H.,Oh-Oka, H.,Fukuyama, K. Crystal structures of CbiL, a methyltransferase involved in anaerobic vitamin B biosynthesis, and CbiL in complex with S-adenosylhomocysteine--implications for the reaction mechanism. 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The crystal structure of Atg3, an autophagy-related ubiquitin carrier protein (E2) enzyme that mediates Atg8 lipidation J.Biol.Chem. 2007 282 8036 8043 2E6U 16041065 Crystal structure of hypothetical protein PH1109 from Pyrococcus horikoshii 2007-01-03 2007-01-23 Kitago, Y.,Watanabe, N.,Tanaka, I. Structure determination of a novel protein by sulfur SAD using chromium radiation in combination with a new crystal-mounting method ACTA CRYSTALLOGR.,SECT.D 2005 61 1013 1021 2BZW 18248095 The crystal structure of BCL-XL in complex with full-length BAD 2005-08-24 2007-02-13 Ku, B.,Woo, J.,Liang, C.,Lee, K.,Hong, H.,Xiaofeni, E.,Kim, K.,Jung, J.U.,Oh, B. Structural and Biochemical Bases for the Inhibition of Autophagy and Apoptosis by Viral Bcl-2 of Murine Gamma-Herpesvirus 68. Plos Pathog. 2008 4 0 0 2DLA 17286576 Primase large subunit amino terminal domain from Pyrococcus horikoshii 2006-04-17 2007-02-27 Ito, N.,Matsui, I.,Matsui, E. 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Crystal structure of ST0656, a function unknown protein from Sulfolobus tokodaii To be Published 0 0 0 0 2DU3 17351629 Crystal structure of Archaeoglobus fulgidus O-phosphoseryl-tRNA synthetase complexed with tRNACys and O-phosphoserine 2006-07-20 2007-03-13 Fukunaga, R.,Yokoyama, S. Structural insights into the first step of RNA-dependent cysteine biosynthesis in archaea. Nat.Struct.Mol.Biol. 2007 14 272 279 2DU4 17351629 Crystal structure of Archaeoglobus fulgidus O-phosphoseryl-tRNA synthetase complexed with tRNACys 2006-07-20 2007-03-13 Fukunaga, R.,Yokoyama, S. Structural insights into the first step of RNA-dependent cysteine biosynthesis in archaea. Nat.Struct.Mol.Biol. 2007 14 272 279 2DU5 17351629 Crystal structure of Archaeoglobus fulgidus O-phosphoseryl-tRNA synthetase E418N/E420N mutant complexed with tRNAOpal and O-phosphoserine (""opal complex"") 2006-07-20 2007-03-13 Fukunaga, R.,Yokoyama, S. Structural insights into the first step of RNA-dependent cysteine biosynthesis in archaea. Nat.Struct.Mol.Biol. 2007 14 272 279 2DU6 17351629 Crystal structure of Archaeoglobus fulgidus O-phosphoseryl-tRNA synthetase E418N/E420N mutant complexed with tRNAAmber and O-phosphoserine (""amber complex"") 2006-07-20 2007-03-13 Fukunaga, R.,Yokoyama, S. Structural insights into the first step of RNA-dependent cysteine biosynthesis in archaea. Nat.Struct.Mol.Biol. 2007 14 272 279 2DU7 17351629 Crystal structure of Methanococcus jannacshii O-phosphoseryl-tRNA synthetase 2006-07-20 2007-03-13 Fukunaga, R.,Yokoyama, S. Structural insights into the first step of RNA-dependent cysteine biosynthesis in archaea. Nat.Struct.Mol.Biol. 2007 14 272 279 2E39 17372351 Crystal structure of the CN-bound form of Arthromyces ramosus peroxidase at 1.3 Angstroms resolution 2006-11-22 2007-03-20 Fukuyama, K.,Okada, T. Structures of cyanide, nitric oxide and hydroxylamine complexes of Arthromyces ramosusperoxidase at 100 K refined to 1.3 A resolution: coordination geometries of the ligands to the haem iron ACTA CRYSTALLOGR.,SECT.D 2007 63 472 477 2E3A 17372351 Crystal structure of the NO-bound form of Arthromyces ramosus peroxidase at 1.3 Angstroms resolution 2006-11-22 2007-03-20 Fukuyama, K.,Okada, T. Structures of cyanide, nitric oxide and hydroxylamine complexes of Arthromyces ramosusperoxidase at 100 K refined to 1.3 A resolution: coordination geometries of the ligands to the haem iron ACTA CRYSTALLOGR.,SECT.D 2007 63 472 477 2E3B 17372351 Crystal structure of the HA-bound form of Arthromyces ramosus peroxidase at 1.3 Angstroms resolution 2006-11-22 2007-03-20 Fukuyama, K.,Okada, T. Structures of cyanide, nitric oxide and hydroxylamine complexes of Arthromyces ramosusperoxidase at 100 K refined to 1.3 A resolution: coordination geometries of the ligands to the haem iron ACTA CRYSTALLOGR.,SECT.D 2007 63 472 477 2GGQ complex of hypothetical glucose-1-phosphate thymidylyltransferase from sulfolobus tokodaii 2006-03-24 2007-03-24 Rajakannan, V.,Yamane, T. complex of hypothetical glucose-1-phosphate thymidylyltransferase from sulfolobus tokodaii To be published 0 0 0 0 2GGS crystal structure of hypothetical dTDP-4-dehydrorhamnose reductase from sulfolobus tokodaii 2006-03-24 2007-03-24 Rajakannan, V.,Mizushima, T.,Suzuki, A.,Masui, R.,Kuramitsu, S.,Yamane, T. crystal structure of hypothetical dTDP-4-dehydrorhamnose reductase from sulfolobus tokodaii To be published 0 0 0 0 2DHT Crystal structure of isocitrate dehydrogenase from Sulfolobus tokodaii strain7 2006-03-25 2007-03-27 Kondo, H.,Murakami, M.,Ihara, K.,Suzuki, S.,Kouyama, T. Crystal structure of isocitrate dehydrogenase of Sulfolobus tokodaii strain7 To be Published 0 0 0 0 2EAR 17389383 P21 crystal of the SR CA2+-ATPase with bound TG 2007-02-02 2007-03-27 Takahashi, M.,Kondou, Y.,Toyoshima, C. Interdomain communication in calcium pump as revealed in the crystal structures with transmembrane inhibitors Proc.Natl.Acad.Sci.Usa 2007 104 5800 5805 2EAR 17389383 P21 crystal of the SR CA2+-ATPase with bound TG 2007-02-02 2007-03-27 Takahashi, M.,Kondou, Y.,Toyoshima, C. Interdomain communication in calcium pump as revealed in the crystal structures with transmembrane inhibitors Proc.Natl.Acad.Sci.Usa 2007 104 5800 5805 2EAT 17389383 Crystal structure of the SR CA2+-ATPASE with bound CPA and TG 2007-02-02 2007-03-27 Takahashi, M.,Kondou, Y.,Toyoshima, C. Interdomain communication in calcium pump as revealed in the crystal structures with transmembrane inhibitors Proc.Natl.Acad.Sci.Usa 2007 104 5800 5805 2EAU 17389383 Crystal structure of the SR CA2+-ATPASE with bound CPA in the presence of curcumin 2007-02-02 2007-03-27 Takahashi, M.,Kondou, Y.,Toyoshima, C. Interdomain communication in calcium pump as revealed in the crystal structures with transmembrane inhibitors Proc.Natl.Acad.Sci.Usa 2007 104 5800 5805 2DKJ Crystal Structure of T.th.HB8 Serine Hydroxymethyltransferase 2006-04-11 2007-04-24 Goto, M.,Kai, K.,Miyahara, I.,Hirotsu, K. Crystal Structure of T.th.HB8 Serine Hydroxymethyltransferase To be Published 0 0 0 0 2EAC 17459873 Crystal structure of 1,2-a-L-fucosidase from Bifidobacterium bifidum in complex with deoxyfuconojirimycin 2007-01-31 2007-04-24 Nagae, M.,Tsuchiya, A.,Katayama, T.,Yamamoto, K.,Wakatsuki, S.,Kato, R. Structural basis on the catalytic reaction mechanism of novel 1,2-alpha-L-fucosidase (AFCA) from Bifidobacterium bifidum J.Biol.Chem. 2007 282 18497 18509 2YVC 17459884 Crystal structure of the Radixin FERM domain complexed with the NEP cytoplasmic tail 2007-04-11 2007-04-24 Terawaki, S.,Kitano, K.,Hakoshima, T. Structural basis for type II membrane protein binding by ERM proteins revealed by the radixin-neutral endopeptidase 24.11 (NEP) complex J.Biol.Chem. 2007 282 19854 19862 2DT4 17295322 Crystal structure of Pyrococcus horikoshii a plant- and prokaryote-conserved (PPC) protein at 1.60 resolution 2006-07-10 2007-05-22 Lin, L.,Nakano, H.,Nakamura, S.,Uchiyama, S.,Fujimoto, S.,Matsunaga, S.,Kobayashi, Y.,Ohkubo, T.,Fukui, K. Crystal structure of Pyrococcus horikoshii PPC protein at 1.60 A resolution Proteins 2007 67 505 507 2DY5 17253780 Crystal structure of rat heme oxygenase-1 in complex with heme and 2-[2-(4-chlorophenyl)ethyl]-2-[(1H-imidazol-1-yl)methyl]-1,3-dioxolane 2006-09-06 2007-05-22 Sugishima, M.,Higashimoto, Y.,Oishi, T.,Takahashi, H.,Sakamoto, H.,Noguchi, M.,Fukuyama, K. X-ray crystallographic and biochemical characterization of the inhibitory action of an imidazole-dioxolane compound on heme oxygenase Biochemistry 2007 46 1860 1867 2E26 17548821 Crystal structure of two repeat fragment of reelin 2006-11-08 2007-05-22 Yasui, N.,Nogi, T.,Kitao, T.,Nakano, Y.,Hattori, M.,Takagi, J. Structure of a receptor-binding fragment of reelin and mutational analysis reveal a recognition mechanism similar to endocytic receptors. Proc.Natl.Acad.Sci.Usa 2007 104 9988 9993 2EQB 17488829 Crystal structure of the Rab GTPase Sec4p, the Sec2p GEF domain, and phosphate complex 2007-03-30 2007-05-22 Sato, Y.,Fukai, S.,Ishitani, R.,Nureki, O. Crystal structure of the Sec4p{middle dot}Sec2p complex in the nucleotide exchanging intermediate state Proc.Natl.Acad.Sci.Usa 2007 104 8305 8310 2Z0E 19322194 The crystal structure of human Atg4B- LC3(1-124) complex 2007-05-07 2007-05-22 Satoo, K.,Noda, N.N.,Kumeta, H.,Fujioka, Y.,Mizushima, N.,Ohsumi, Y.,Inagaki, F. The structure of Atg4B-LC3 complex reveals the mechanism of LC3 processing and delipidation during autophagy. Embo J. 2009 28 1341 1350 2DQL 19032344 Crystal structure of the circadian clock associated protein Pex from anabaena 2006-05-29 2007-05-29 Kurosawa, S.,Murakami, R.,Onai, K.,Morishita, M.,Hasegawa, D.,Iwase, R.,Uzumaki, T.,Hayashi, F.,Kitajima-Ihara, T.,Sakata, S.,Murakami, M.,Kouyama, T.,Ishiura, M. Functionally important structural elements of the cyanobacterial clock-related protein Pex. Genes Cells 2009 14 1 16 2DQ0 18818520 Crystal structure of seryl-tRNA synthetase from Pyrococcus horikoshii complexed with a seryl-adenylate analog 2006-05-18 2007-06-05 Itoh, Y.,Sekine, S.,Kuroishi, C.,Terada, T.,Shirouzu, M.,Kuramitsu, S.,Yokoyama, S. Crystallographic and mutational studies of seryl-tRNA synthetase from the archaeon Pyrococcus horikoshii. Rna Biol. 2008 5 169 177 2DQ3 Crystal structure of aq_298 2006-05-18 2007-06-05 Itoh, Y.,Sekine, S.,Yokoyama, S. Crystal structure of aq_298 To be Published 0 0 0 0 2DQS Crystal structure of the calcium pump with amppcp in the absence of calcium 2006-05-29 2007-06-05 Toyoshima, C.,Norimatsu, Y.,Tsueda, J. Crystal structure of the calcium pump with a bound ATP analogue in the absence of calcium To be Published 0 0 0 0 2E7E 17554165 Bent-binding of cyanide to the heme iron in rat heme oxygenase-1 2007-01-09 2007-06-19 Sugishima, M.,Oda, K.,Ogura, T.,Sakamoto, H.,Noguchi, M.,Fukuyama, K. Alternative cyanide-binding modes to the haem iron in haem oxygenase Acta Crystallogr.,Sect.F 2007 63 471 474 2DW0 17485084 Crystal structure of VAP2 from Crotalus atrox venom (Form 2-1 crystal) 2006-08-02 2007-07-10 Igarashi, T.,Araki, S.,Mori, H.,Takeda, S. Crystal structures of catrocollastatin/VAP2B reveal a dynamic, modular architecture of ADAM/adamalysin/reprolysin family proteins Febs Lett. 2007 581 2416 2422 2DW1 17485084 Crystal structure of VAP2 from Crotalus atrox venom (Form 2-2 crystal) 2006-08-02 2007-07-10 Igarashi, T.,Araki, S.,Mori, H.,Takeda, S. Crystal structures of catrocollastatin/VAP2B reveal a dynamic, modular architecture of ADAM/adamalysin/reprolysin family proteins Febs Lett. 2007 581 2416 2422 2DW2 17485084 Crystal structure of VAP2 from Crotalus atrox venom (Form 2-5 crystal) 2006-08-02 2007-07-10 Igarashi, T.,Araki, S.,Mori, H.,Takeda, S. Crystal structures of catrocollastatin/VAP2B reveal a dynamic, modular architecture of ADAM/adamalysin/reprolysin family proteins Febs Lett. 2007 581 2416 2422 2DSN 17932933 Crystal structure of T1 lipase 2006-07-03 2007-07-17 Matsumura, H.,Yamamoto, T.,Leow, T.C.,Mori, T.,Salleh, A.B.,Basri, M.,Inoue, T.,Kai, Y.,Rahman, R.N.Z.R.A. Novel cation-pi interaction revealed by crystal structure of thermoalkalophilic lipase Proteins 2007 70 592 598 2E7I 17512006 Crystal Structure of Sep-tRNA:Cys-tRNA Synthase from Archaeoglobus fulgidus 2007-01-10 2007-07-17 Fukunaga, R.,Yokoyama, S. Structural Insights into the Second Step of RNA-dependent Cysteine Biosynthesis in Archaea: Crystal Structure of Sep-tRNA:Cys-tRNA Synthase from Archaeoglobus fulgidus J.Mol.Biol. 2007 370 128 141 2E7J 17512006 Crystal Structure of Sep-tRNA:Cys-tRNA Synthase from Archaeoglobus fulgidus 2007-01-10 2007-07-17 Fukunaga, R.,Yokoyama, S. Structural Insights into the Second Step of RNA-dependent Cysteine Biosynthesis in Archaea: Crystal Structure of Sep-tRNA:Cys-tRNA Synthase from Archaeoglobus fulgidus J.Mol.Biol. 2007 370 128 141 2EB6 17559873 Crystal structure of HpcG complexed with Mg ion 2007-02-07 2007-07-17 Izumi, A.,Rea, D.,Adachi, T.,Unzai, S.,Park, S.Y.,Roper, D.I.,Tame, J.R.H. Structure and Mechanism of HpcG, a Hydratase in the Homoprotocatechuate Degradation Pathway of Escherichia coli J.Mol.Biol. 2007 370 899 911 2Z1E 17612488 Crystal structure of HypE from Thermococcus kodakaraensis (outward form) 2007-05-08 2007-07-17 Watanabe, S.,Matsumi, R.,Arai, T.,Atomi, H.,Imanaka, T.,Miki, K. Crystal Structures of [NiFe] Hydrogenase Maturation Proteins HypC, HypD, and HypE: Insights into Cyanation Reaction by Thiol Redox Signaling Mol.Cell 2007 27 29 40 2Z1F 17612488 Crystal structure of HypE from Thermococcus kodakaraensis (inward form) 2007-05-08 2007-07-17 Watanabe, S.,Matsumi, R.,Arai, T.,Atomi, H.,Imanaka, T.,Miki, K. Crystal Structures of [NiFe] Hydrogenase Maturation Proteins HypC, HypD, and HypE: Insights into Cyanation Reaction by Thiol Redox Signaling Mol.Cell 2007 27 29 40 2DU9 17766384 crystal structure of the transcriptional factor from C.glutamicum 2006-07-20 2007-07-24 Gao, Y.,Yao, M.,Itou, H.,Zhou, Y.,Tanaka, I. The structures of transcription factor CGL2947 from Corynebacterium glutamicum in two crystal forms: A novel homodimer assembling and the implication for effector-binding mode Protein Sci. 2007 16 1878 1886 2DZS Structure of mutant tryptophan synthase alpha-subunit (E103A) from a hyperthermophile, Pyrococcus furiosus 2006-09-30 2007-08-28 Ogasahara, K.,Yamagata, Y.,Yutani, K. Structures of mutant tryptophan synthase alpha-subunits from a hyperthermophile, Pyrococcus furiosus To be Published 0 0 0 0 2DZT Structure of mutant tryptophan synthase alpha-subunit (D110A) from a hyperthermophile, Pyrococcus furiosus 2006-09-30 2007-08-28 Ogasahara, K.,Yamagata, Y.,Yutani, K. Structures of mutant tryptophan synthase alpha-subunits from a hyperthermophile, Pyrococcus furiosus To be Published 0 0 0 0 2DZW Structure of mutant tryptophan synthase alpha-subunit (E244A) from a hyperthermophile, Pyrococcus furiosus 2006-09-30 2007-08-28 Ogasahara, K.,Yamagata, Y.,Yutani, K. Structures of mutant tryptophan synthase alpha-subunits from a hyperthermophile, Pyrococcus furiosus To be Published 0 0 0 0 2DZX Structure of mutant tryptophan synthase alpha-subunit (E131-132A) from a hyperthermophile, Pyrococcus furiosus 2006-09-30 2007-08-28 Ogasahara, K.,Yamagata, Y.,Yutani, K. Structures of mutant tryptophan synthase alpha-subunits from a hyperthermophile, Pyrococcus furiosus To be Published 0 0 0 0 2E09 Structure of mutant tryptophan synthase alpha-subunit (E74A) from a hyperthermophile, Pyrococcus furiosus 2006-10-02 2007-08-28 Ogasahara, K.,Yamagata, Y.,Yutani, K. Structures of mutant tryptophan synthase alpha-subunits from a hyperthermophile, Pyrococcus furiosus To be Published 0 0 0 0 2QD0 17766439 Crystal structure of mitoNEET 2007-06-20 2007-08-28 Lin, J.,Zhou, T.,Ye, K.,Wang, J. Crystal structure of human mitoNEET reveals distinct groups of iron sulfur proteins. Proc.Natl.Acad.Sci.Usa 2007 104 14640 14645 2DW4 18039463 Crystal structure of human LSD1 at 2.3 A resolution 2006-08-02 2007-09-04 Mimasu, S.,Sengoku, T.,Fukuzawa, S.,Umehara, T.,Yokoyama, S. Crystal structure of histone demethylase LSD1 and tranylcypromine at 2.25A Biochem.Biophys.Res.Commun. 2008 366 15 22 2YVX 17700703 Crystal structure of magnesium transporter MgtE 2007-04-18 2007-09-04 Hattori, M.,Tanaka, Y.,Fukai, S.,Ishitani, R.,Nureki, O. Crystal structure of the MgtE Mg(2+) transporter Nature 2007 448 1072 1075 2YVY 17700703 Crystal structure of magnesium transporter MgtE cytosolic domain, Mg2+ bound form 2007-04-18 2007-09-04 Hattori, M.,Tanaka, Y.,Fukai, S.,Ishitani, R.,Nureki, O. Crystal structure of the MgtE Mg(2+) transporter Nature 2007 448 1072 1075 2EHG Crystal structure of hyperthermophilic archaeal RNase HI 2007-03-06 2007-09-11 You, D.J.,Chon, H.,Koga, Y.,Takano, K.,Kanaya, S. Crystal Structure of Type 1 RNase H from a Hyperthermophilic Archaeon with Double-stranded RNA-dependent RNase Activity To be Published 0 0 0 0 2EHG Crystal structure of hyperthermophilic archaeal RNase HI 2007-03-06 2007-09-11 You, D.J.,Chon, H.,Koga, Y.,Takano, K.,Kanaya, S. Crystal Structure of Type 1 RNase H from a Hyperthermophilic Archaeon with Double-stranded RNA-dependent RNase Activity To be Published 0 0 0 0 2EEX 17905739 Crystal structure of Cel44A, GH family 44 endoglucanase from Clostridium thermocellum 2007-02-19 2007-09-18 Kitago, Y.,Karita, S.,Watanabe, N.,Kamiya, M.,Aizawa, T.,Sakka, K.,Tanaka, I. Crystal structure of Cel44A, a glycoside hydrolase family 44 endoglucanase from Clostridium thermocellum. J.Biol.Chem. 2007 282 35703 35711 2Z63 17803912 Crystal structure of the TV8 hybrid of human TLR4 and hagfish VLRB.61 2007-07-22 2007-09-18 Kim, H.M.,Park, B.S.,Kim, J.-I.,Kim, S.E.,Lee, J.,Oh, S.C.,Enkhbayar, P.,Matsushima, N.,Lee, H.,Yoo, O.J.,Lee, J.-O. Crystal Structure of the TLR4-MD-2 Complex with Bound Endotoxin Antagonist Eritoran Cell(Cambridge,Mass.) 2007 130 906 917 2Z65 17803912 Crystal structure of the human TLR4 TV3 hybrid-MD-2-Eritoran complex 2007-07-22 2007-09-18 Kim, H.M.,Park, B.S.,Kim, J.-I.,Kim, S.E.,Lee, J.,Oh, S.C.,Enkhbayar, P.,Matsushima, N.,Lee, H.,Yoo, O.J.,Lee, J.-O. Crystal Structure of the TLR4-MD-2 Complex with Bound Endotoxin Antagonist Eritoran Cell(Cambridge,Mass.) 2007 130 906 917 2E0Q 17557330 Crystal structure of K53E thioredoxin from Sulfolobus tokodaii strain7 2006-10-11 2007-10-02 Ming, H.,Kato, Y.,Miyazono, K.,Ito, K.,Kamo, M.,Nagata, K.,Tanokura, M. Crystal structure of thioredoxin domain of ST2123 from thermophilic archaea Sulfolobus tokodaii strain7 Proteins 2007 69 204 208 2HYK 17879342 The crystal structure of an endo-beta-1,3-glucanase from alkaliphilic Nocardiopsis sp.strain F96 2006-08-07 2007-10-02 Fibriansah, G.,Masuda, S.,Koizumi, N.,Nakamura, S.,Kumasaka, T. The 1.3 A crystal structure of a novel endo-beta-1,3-glucanase of glycoside hydrolase family 16 from alkaliphilic Nocardiopsis sp. strain F96. Proteins 2007 69 683 690 2Z81 17889651 Crystal structure of the TLR1-TLR2 heterodimer induced by binding of a tri-acylated lipopeptide 2007-08-30 2007-10-02 Jin, M.S.,Kim, S.E.,Heo, J.Y.,Lee, M.E.,Kim, H.M.,Paik, S.G.,Lee, H.,Lee, J.O. Crystal Structure of the TLR1-TLR2 Heterodimer Induced by Binding of a Tri-Acylated Lipopeptide Cell(Cambridge,Mass.) 2007 130 1071 1082 2Z82 17889651 Crystal structure of the TLR1-TLR2 heterodimer induced by binding of a tri-acylated lipopeptide 2007-08-30 2007-10-02 Jin, M.S.,Kim, S.E.,Heo, J.Y.,Lee, M.E.,Kim, H.M.,Paik, S.G.,Lee, H.,Lee, J.O. Crystal Structure of the TLR1-TLR2 Heterodimer Induced by Binding of a Tri-Acylated Lipopeptide Cell(Cambridge,Mass.) 2007 130 1071 1082 2E3U 17654551 Crystal structure analysis of Dim2p from Pyrococcus horikoshii OT3 2006-11-29 2007-10-23 Jia, M.Z.,Ohtsuka, J.,Lee, W.C.,Nagata, K.,Tanokura, M. Crystal structure of Dim2p: a preribosomal RNA processing factor, from Pyrococcus horikoshii OT3 at 2.30 A Proteins 2007 69 428 432 2YWB Crystal structure of GMP synthetase from Thermus thermophilus 2007-04-20 2007-10-23 Baba, S.,Kanagawa, M.,Yanai, H.,Ishii, T.,Kuramitsu, S.,Yokoyama, S.,Sampei, G.,Kawai, G. Crystal structure of GMP synthetase from Thermus thermophilus To be Published 0 0 0 0 2YWB Crystal structure of GMP synthetase from Thermus thermophilus 2007-04-20 2007-10-23 Baba, S.,Kanagawa, M.,Yanai, H.,Ishii, T.,Kuramitsu, S.,Yokoyama, S.,Sampei, G.,Kawai, G. Crystal structure of GMP synthetase from Thermus thermophilus To be Published 0 0 0 0 2Z2U 17727881 Crystal structure of archaeal TYW1 2007-05-28 2007-10-23 Suzuki, Y.,Noma, A.,Suzuki, T.,Senda, M.,Senda, T.,Ishitani, R.,Nureki, O. Crystal Structure of the Radical SAM Enzyme Catalyzing Tricyclic Modified Base Formation in tRNA J.Mol.Biol. 2007 372 1204 1214 2Z5J 17936704 Free Transportin 1 2007-07-13 2007-10-23 Imasaki, T.,Shimizu, T.,Hashimoto, H.,Hidaka, Y.,Kose, S.,Imamoto, N.,Yamada, M.,Sato, M. Structural basis for substrate recognition and dissociation by human transportin 1 Mol.Cell 2007 28 57 67 2Z5N 17936704 Complex of Transportin 1 with hnRNP D NLS 2007-07-14 2007-10-23 Imasaki, T.,Shimizu, T.,Hashimoto, H.,Hidaka, Y.,Kose, S.,Imamoto, N.,Yamada, M.,Sato, M. Structural basis for substrate recognition and dissociation by human transportin 1 Mol.Cell 2007 28 57 67 2Z5O 17936704 Complex of Transportin 1 with JKTBP NLS 2007-07-14 2007-10-23 Imasaki, T.,Shimizu, T.,Hashimoto, H.,Hidaka, Y.,Kose, S.,Imamoto, N.,Yamada, M.,Sato, M. Structural basis for substrate recognition and dissociation by human transportin 1 Mol.Cell 2007 28 57 67 2IP4 20716513 Crystal Structure of Glycinamide Ribonucleotide Synthetase from Thermus thermophilus HB8 2006-10-11 2007-10-30 Sampei, G.,Baba, S.,Kanagawa, M.,Yanai, H.,Ishii, T.,Kawai, H.,Fukai, Y.,Ebihara, A.,Nakagawa, N.,Kawai, G. Crystal structures of glycinamide ribonucleotide synthetase, PurD, from thermophilic eubacteria J.Biochem. 2010 148 429 438 2PED 17449675 Crystallographic model of 9-cis-rhodopsin 2007-04-02 2007-10-30 Nakamichi, H.,Buss, V.,Okada, T. Photoisomerization mechanism of rhodopsin and 9-cis-rhodopsin revealed by x-ray crystallography Biophys.J. 2007 92 0 0 2E21 Crystal structure of TilS in a complex with AMPPNP from Aquifex aeolicus. 2006-11-06 2007-11-06 Kuratani, M.,Yoshikawa, Y.,Bessho, Y.,Higashijima, K.,Ishii, T.,Shibata, R.,Takahashi, S.,Yutani, K.,Yokoyama, S. Structural basis of the initial binding of tRNA(Ile) lysidine synthetase TilS with ATP and L-lysine To be Published 0 0 0 0 2E7A 18003610 TNF Receptor Subtype One-selective TNF Mutant with Antagonistic Activity 2007-01-09 2007-11-13 Shibata, H.,Yoshioka, Y.,Ohkawa, A.,Minowa, K.,Mukai, Y.,Abe, Y.,Taniai, M.,Nomura, T.,Kayamuro, H.,Nabeshi, H.,Sugita, T.,Imai, S.,Nagano, K.,Yoshikawa, T.,Fujita, T.,Nakagawa, S.,Yamamoto, A.,Ohta, T.,Hayakawa, T.,Mayumi, T.,Vandenabeele, P.,Aggarwal, B.B.,Nakamura, T.,Yamagata, Y.,Tsunoda, S.,Kamada, H.,Tsutsumi, Y. Creation and X-ray structure analysis of the tumor necrosis factor receptor-1-selective mutant of a tumor necrosis factor-alpha antagonist J.Biol.Chem. 2008 283 998 1007 2E89 Crystal structure of Aquifex aeolicus TilS in a complex with ATP, Magnesium ion, and L-lysine 2007-01-19 2007-11-13 Kuratani, M.,Yoshikawa, Y.,Bessho, Y.,Higashijima, K.,Ishii, T.,Shibata, R.,Takahashi, S.,Yutani, K.,Yokoyama, S. Structural basis of the initial binding of tRNA(Ile) lysidine synthetase TilS with ATP and L-lysine To be Published 0 0 0 0 2ISM Crystal structure of the putative oxidoreductase (glucose dehydrogenase) (TTHA0570) from thermus theromophilus HB8 2006-10-18 2007-11-13 Jeyakanthan, J.,Kanaujia, S.P.,Vasuki Ranjani, C.,Sekar, K.,Ebihara, A.,Shinkai, A.,Nakagawa, N.,Shimizu, N.,Yamamoto, M.,Kuramitsu, S.,Shiro, Y.,Yokoyama, S. Crystal Structure of the Putative Oxidoreductase (Glucose Dehydrogenase) (TTHA0570) from Thermus Theromophilus HB8 To be Published 0 0 0 0 2Z1G 17761696 Crystal structure of E.coli RNase HI surface charged mutant(Q4R/T40E/Q72H/Q76K/Q80E/T92K/Q105K) 2007-05-08 2007-11-13 You, D.-J.,Fukuchi, S.,Nishikawa, K.,Koga, Y.,Takano, K.,Kanaya, S. Protein Thermostabilization Requires a Fine-tuned Placement of Surface-charged Residues J.Biochem.(Tokyo) 2007 142 507 516 2E2G 18436649 Crystal structure of archaeal peroxiredoxin, thioredoxin peroxidase from Aeropyrum pernix K1 (pre-oxidation form) 2006-11-13 2007-11-20 Nakamura, T.,Yamamoto, T.,Abe, M.,Matsumura, H.,Hagihara, Y.,Goto, T.,Yamaguchi, T.,Inoue, T. Oxidation of archaeal peroxiredoxin involves a hypervalent sulfur intermediate Proc.Natl.Acad.Sci.Usa 2008 105 6238 6242 2E2M 18436649 Crystal structure of archaeal peroxiredoxin, thioredoxin peroxidase from Aeropyrum pernix K1 (sulfinic acid form) 2006-11-14 2007-11-20 Nakamura, T.,Yamamoto, T.,Abe, M.,Matsumura, H.,Hagihara, Y.,Goto, T.,Yamaguchi, T.,Inoue, T. Oxidation of archaeal peroxiredoxin involves a hypervalent sulfur intermediate Proc.Natl.Acad.Sci.Usa 2008 105 6238 6242 2NVL 18436649 Crystal structure of archaeal peroxiredoxin, thioredoxin peroxidase from Aeropyrum pernix K1 (sulfonic acid form) 2006-11-13 2007-11-20 Nakamura, T.,Yamamoto, T.,Abe, M.,Matsumura, H.,Hagihara, Y.,Goto, T.,Yamaguchi, T.,Inoue, T. Oxidation of archaeal peroxiredoxin involves a hypervalent sulfur intermediate Proc.Natl.Acad.Sci.Usa 2008 105 6238 6242 2ZBD 15448704 Crystal Structure of the SR Calcium Pump with Bound Aluminium Fluoride, ADP and Calcium 2007-10-20 2007-11-20 Toyoshima, C.,Nomura, H.,Tsuda, T. Lumenal gating mechanism revealed in calcium pump crystal structures with phosphate analogues Nature 2004 432 361 368 2Z9O 18000058 Crystal structure of the dimeric form of RepE in complex with the repE operator DNA 2007-09-21 2007-11-27 Nakamura, A.,Wada, C.,Miki, K. Structural basis for regulation of bifunctional roles in replication initiator protein Proc.Natl.Acad.Sci.Usa 2007 104 18484 18489 2E3C 18387634 Crystal structure of the catalytic domain of pyrrolysyl-tRNA synthetase 2006-11-22 2007-12-11 Yanagisawa, T.,Ishii, R.,Fukunaga, R.,Kobayashi, T.,Sakamoto, K.,Yokoyama, S. Crystallographic Studies on Multiple Conformational States of Active-site Loops in Pyrrolysyl-tRNA Synthetase J.Mol.Biol. 2008 378 634 652 2E3X 18060879 Crystal structure of Russell's viper venom metalloproteinase 2006-11-30 2007-12-11 Takeda, S.,Igarashi, T.,Mori, H. Crystal structure of RVV-X: an example of evolutionary gain of specificity by ADAM proteinases. Febs Lett. 2007 581 5859 5864 2ZAG 18046457 Crystal structure of the SeMet-substituted soluble domain of STT3 from P. furiosus 2007-10-05 2007-12-11 Igura, M.,Maita, N.,Kamishikiryo, J.,Yamada, M.,Obita, T.,Maenaka, K.,Kohda, D. Structure-guided identification of a new catalytic motif of oligosaccharyltransferase Embo J. 2008 27 234 243 2ZAI 18046457 Crystal structure of the soluble domain of STT3 from P. furiosus 2007-10-05 2007-12-11 Igura, M.,Maita, N.,Kamishikiryo, J.,Yamada, M.,Obita, T.,Maenaka, K.,Kohda, D. Structure-guided identification of a new catalytic motif of oligosaccharyltransferase Embo J. 2008 27 234 243 2ZBE 18077416 Calcium pump crystal structure with bound BeF3 in the absence of calcium and TG 2007-10-20 2007-12-11 Toyoshima, C.,Norimatsu, Y.,Iwasawa, S.,Tsuda, T.,Ogawa, H. How processing of aspartylphosphate is coupled to lumenal gating of the ion pathway in the calcium pump Proc.Natl.Acad.Sci.Usa 2007 104 19831 19836 2ZBF 18077416 Calcium pump crystal structure with bound BeF3 and TG in the absence of calcium 2007-10-20 2007-12-11 Toyoshima, C.,Norimatsu, Y.,Iwasawa, S.,Tsuda, T.,Ogawa, H. How processing of aspartylphosphate is coupled to lumenal gating of the ion pathway in the calcium pump Proc.Natl.Acad.Sci.Usa 2007 104 19831 19836 2ZBG 18077416 Calcium pump crystal structure with bound AlF4 and TG in the absence of calcium 2007-10-20 2007-12-11 Toyoshima, C.,Norimatsu, Y.,Iwasawa, S.,Tsuda, T.,Ogawa, H. How processing of aspartylphosphate is coupled to lumenal gating of the ion pathway in the calcium pump Proc.Natl.Acad.Sci.Usa 2007 104 19831 19836 2ZE4 Crystal structure of phospholipase D from streptomyces antibioticus 2007-12-05 2007-12-25 Suzuki, A.,Kakuno, K.,Saito, R.,Iwasaki, Y.,Yamane, T.,Yamane, T. Crystal structure of phospholipase D from streptomyces antibioticus To be Published 0 0 0 0 2EI4 18082767 Trimeric complex of archaerhodopsin-2 2007-03-11 2008-01-01 Yoshimura, K.,Kouyama, T. Structural role of bacterioruberin in the trimeric structure of archaerhodopsin-2 J.Mol.Biol. 2008 375 1267 1281 2Z3Y 18039463 Crystal structure of Lysine-specific demethylase1 2007-06-08 2008-01-01 Mimasu, S.,Sengoku, T.,Fukuzawa, S.,Umehara, T.,Yokoyama, S. Crystal structure of histone demethylase LSD1 and tranylcypromine at 2.25A Biochem.Biophys.Res.Commun. 2008 366 15 22 2ZF3 Crystal Structure of VioE 2007-12-20 2008-01-01 Hirano, S.,Asamizu, S.,Onaka, H.,Shiro, Y.,Nagano, S. Crystal structure of VioE, a key player in the construction of the molecular skeleton of violacein To be Published 0 0 0 0 2ZF4 Crystal Structure of VioE complexed with phenylpyruvic acid 2007-12-20 2008-01-01 Hirano, S.,Asamizu, S.,Onaka, H.,Shiro, Y.,Nagano, S. Crystal structure of VioE, a key player in the construction of the molecular skeleton of violacein To be Published 0 0 0 0 2E83 T31V mutant of FMN-binding protein from Desulfovibrio vulgaris (Miyazaki F) 2007-01-17 2008-01-15 Shibata, N.,Kitamura, M.,Higuchi, Y. Structure of T31V mutant of FMN-binding protein from Desulfovibrio vulgaris Miyazaki F To be Published 0 0 0 0 2E8I 19476493 Structure of 6-aminohexanoate-dimer hydrolase, D1 mutant 2007-01-20 2008-01-15 Kawashima, Y.,Ohki, T.,Shibata, N.,Higuchi, Y.,Wakitani, Y.,Matsuura, Y.,Nakata, Y.,Takeo, M.,Kato, D.,Negoro, S. Molecular design of a nylon-6 byproduct-degrading enzyme from a carboxylesterase with a beta-lactamase fold. 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J.Med.Chem. 2007 50 6647 6653 2EIY Crystal Structure of T.th.HB8 Branched-Chain Amino Acid Aminotransferase Complexed with 4-Methylvaleric Acid 2007-03-14 2008-03-18 Goto, M. Crystal Structure of T.th.HB8 Branched-Chain Amino Acid Aminotransferase Complexed with 4-Methylvaleric Acid To be published 0 0 0 0 2EL9 Crystal structure of E.coli Histidyl-tRNA synthetase complexed with a histidyl-adenylate analogue 2007-03-27 2008-03-18 Yanagisawa, T.,Si, S.Y.,Matsuno, M.,Ishii, R.,Yokoyama, S. Crystal structure of E.coli Histidyl-tRNA synthetase complexed with a histidyl-adenylate analogue To be published 0 0 0 0 2EMT 18076570 Crystal Structure Analysis of the radixin FERM domain complexed with adhesion molecule PSGL-1 2007-03-28 2008-03-18 Takai, Y.,Kitano, K.,Terawaki, S.,Maesaki, R.,Hakoshima, T. 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Open Biology 2016 6 0 0 5CXM 27663073 Crystal structure of the cyanobacterial plasma membrane Rieske protein PetC3 from Synechocystis PCC 6803 2015-07-29 2016-08-03 Veit, S.,Takeda, K.,Tsunoyama, Y.,Baymann, F.,Nevo, R.,Reich, Z.,Rogner, M.,Miki, K.,Rexroth, S. Structural and functional characterisation of the cyanobacterial PetC3 Rieske protein family. Biochim. Biophys. Acta 2016 1857 1879 1891 5JHF 27404361 Crystal structure of Atg13(17BR)-Atg13(17LR)-Atg17-Atg29-Atg31 complex 2016-04-21 2016-08-03 Yamamoto, H.,Fujioka, Y.,Suzuki, S.W.,Noshiro, D.,Suzuki, H.,Kondo-Kakuta, C.,Kimura, Y.,Hirano, H.,Ando, T.,Noda, N.N.,Ohsumi, Y. The Intrinsically Disordered Protein Atg13 Mediates Supramolecular Assembly of Autophagy Initiation Complexes. Dev.Cell 2016 38 86 99 5B83 27552911 Crystal structure of Optineurin UBAN in complex with linear ubiquitin 2016-06-12 2016-09-07 Nakazawa, S.,Oikawa, D.,Ishii, R.,Ayaki, T.,Takahashi, H.,Takeda, H.,Ishitani, R.,Kamei, K.,Takeyoshi, I.,Kawakami, H.,Iwai, K.,Hatada, I.,Sawasaki, T.,Ito, H.,Nureki, O.,Tokunaga, F. Linear ubiquitination is involved in the pathogenesis of optineurin-associated amyotrophic lateral sclerosis Nat Commun 2016 7 12547 12547 5CM0 30733943 Crystal structure of branched-chain aminotransferase from thermophilic archaea Geoglobus acetivorans 2015-07-16 2016-09-14 Isupov, M.N.,Boyko, K.M.,Sutter, J.M.,James, P.,Sayer, C.,Schmidt, M.,Schonheit, P.,Nikolaeva, A.Y.,Stekhanova, T.N.,Mardanov, A.V.,Ravin, N.V.,Bezsudnova, E.Y.,Popov, V.O.,Littlechild, J.A. Thermostable Branched-Chain Amino Acid Transaminases From the Archaea Geoglobus acetivorans and Archaeoglobus fulgidus : Biochemical and Structural Characterization. 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Structural Analysis Reveals that Toll-like Receptor 7 Is a Dual Receptor for Guanosine and Single-Stranded RNA Immunity 2016 45 737 748 5TGZ 27768894 Crystal Structure of the Human Cannabinoid Receptor CB1 2016-09-28 2016-11-02 Hua, T.,Vemuri, K.,Pu, M.,Qu, L.,Han, G.W.,Wu, Y.,Zhao, S.,Shui, W.,Li, S.,Korde, A.,Laprairie, R.B.,Stahl, E.L.,Ho, J.H.,Zvonok, N.,Zhou, H.,Kufareva, I.,Wu, B.,Zhao, Q.,Hanson, M.A.,Bohn, L.M.,Makriyannis, A.,Stevens, R.C.,Liu, Z.J. Crystal Structure of the Human Cannabinoid Receptor CB1. Cell 2016 167 750 0 5EKC Thermostable aldehyde dehydrogenase from Pyrobaculum sp.1860 complexed with NADP+ 2015-11-03 2016-11-16 Bezsudnova, E.Y.,Petrova, T.E.,Rakitina, T.V.,Boyko, K.M.,Nikolaeva, A.Y.,Polyakov, K.M.,Shabalin, I.G.,Popov, V.O. Structure of thermostable aldehyde dehydrogenase from Pyrobaculum sp.1860 complexed with NADP+ To Be Published 0 0 0 0 5B58 27830695 Inward-facing conformation of ABC heme importer BhuUV in complex with periplasmic heme binding protein BhuT from Burkholderia cenocepacia 2016-04-25 2016-11-23 Naoe, Y.,Nakamura, N.,Doi, A.,Sawabe, M.,Nakamura, H.,Shiro, Y.,Sugimoto, H. Crystal structure of bacterial haem importer complex in the inward-facing conformation Nat Commun 2016 7 13411 13411 5EXF 27956891 Thermostable aldehyde dehydrogenase from Pyrobaculum sp.1860 complexed with NADP+ 2015-11-23 2016-12-07 Bezsudnova, E.Y.,Petrova, T.E.,Artemova, N.V.,Boyko, K.M.,Shabalin, I.G.,Rakitina, T.V.,Polyakov, K.M.,Popov, V.O. NADP-Dependent Aldehyde Dehydrogenase from ArchaeonPyrobaculum sp.1860: Structural and Functional Features. 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Structural basis for chemokine recognition and receptor activation of chemokine receptor CCR5. Nat Commun 2021 12 4151 4151 7P1Z 35129654 Novel GH12 endogluconase from Aspergillus cervinus 2021-07-03 2021-07-21 Rykov, S.V.,Selimzyanova, A.I.,Nikolaeva, A.Y.,Lazarenko, V.A.,Tsurin, N.V.,Akentyev, P.I.,Zverlov, V.V.,Liebl, W.,Schwarz, W.H.,Berezina, O.V. Unusual substrate specificity in GH family 12: structure-function analysis of glucanases Bgh12A and Xgh12B from Aspergillus cervinus, and Egh12 from Thielavia terrestris. Appl.Microbiol.Biotechnol. 2022 106 1493 1509 7EU4 34193767 Crystal structure of plant ATG12 complexed with the AIM12 of ATG3 2021-05-16 2021-07-28 Matoba, K.,Noda, N.N. Atg12-Interacting Motif Is Crucial for E2-E3 Interaction in Plant Atg8 System. Biol.Pharm.Bull. 2021 44 1337 1343 7CNV Crystal structure of IscU H106C variant 2020-08-03 2021-08-04 Kunichika, K.,Fujishiro, T.,Takahashi, Y. [2Fe-2S] clusters-assembled dimeric structures of IscU iron-sulfur scaffold to be published 0 0 0 0 7EAS 34274549 Crystal structure of human pyruvate dehydrogenase kinase 2 in complex with compound 2 2021-03-08 2021-08-04 Akaki, T.,Bessho, Y.,Ito, T.,Fujioka, S.,Ubukata, M.,Mori, G.,Yamanaka, K.,Orita, T.,Doi, S.,Iwanaga, T.,Ikegashira, K.,Hantani, Y.,Nakanishi, I.,Adachi, T. Fragment-based lead discovery to identify novel inhibitors that target the ATP binding site of pyruvate dehydrogenase kinases. Bioorg.Med.Chem. 2021 44 116283 116283 7EBH 34274549 Crystal structure of human pyruvate dehydrogenase kinase 2 in complex with compound 13 2021-03-09 2021-08-04 Akaki, T.,Bessho, Y.,Ito, T.,Fujioka, S.,Ubukata, M.,Mori, G.,Yamanaka, K.,Orita, T.,Doi, S.,Iwanaga, T.,Ikegashira, K.,Hantani, Y.,Nakanishi, I.,Adachi, T. Fragment-based lead discovery to identify novel inhibitors that target the ATP binding site of pyruvate dehydrogenase kinases. Bioorg.Med.Chem. 2021 44 116283 116283 7E62 34242591 Mouse TAB2 NZF in complex with Lys6-linked diubiquitin 2021-02-21 2021-08-18 Li, Y.,Okatsu, K.,Fukai, S.,Sato, Y. Structural basis for specific recognition of K6-linked polyubiquitin chains by the TAB2 NZF domain. Biophys.J. 2021 120 3355 3362 7EFL 34588453 Crystal structure of the gastric proton pump K791S in (BYK)E2BeF state 2021-03-22 2021-09-01 Abe, K.,Yamamoto, K.,Irie, K.,Nishizawa, T.,Oshima, A. Gastric proton pump with two occluded K + engineered with sodium pump-mimetic mutations. Nat Commun 2021 12 5709 5709 7EFM 34588453 Crystal structure of the gastric proton pump K791S/E820D/Y340N in (BYK)E2BeF state 2021-03-22 2021-09-01 Abe, K.,Yamamoto, K.,Irie, K.,Nishizawa, T.,Oshima, A. Gastric proton pump with two occluded K + engineered with sodium pump-mimetic mutations. Nat Commun 2021 12 5709 5709 7EFN 34588453 Crystal structure of the gastric proton pump K791S/E820D/Y340N/E936V in (BYK)E2BeF state 2021-03-22 2021-09-01 Abe, K.,Yamamoto, K.,Irie, K.,Nishizawa, T.,Oshima, A. Gastric proton pump with two occluded K + engineered with sodium pump-mimetic mutations. Nat Commun 2021 12 5709 5709 7CZI Structure of the CYP102A1 Haem Domain with N-{2-[4-(Trifluoromethoxy)phenoxy]}acetoyl-L-Phenylalanine 2020-09-08 2021-09-08 Shoji, O.,Stanfield, J.K. Structure of the CYP102A1 Haem Domain with N-{2-[4-(Trifluoromethoxy)phenoxy]}acetoyl-L-Phenylalanine at 1.64 Angstrom Resolution To Be Published 0 0 0 0 7DVR 33850260 Crystal structure of heme sensor protein PefR from Streptococcus agalactiae in complex with heme 2021-01-15 2021-09-29 Nishinaga, M.,Sugimoto, H.,Nishitani, Y.,Nagai, S.,Nagatoishi, S.,Muraki, N.,Tosha, T.,Tsumoto, K.,Aono, S.,Shiro, Y.,Sawai, H. Heme controls the structural rearrangement of its sensor protein mediating the hemolytic bacterial survival. Commun Biol 2021 4 467 467 7DVT 33850260 Crystal structure of heme sensor protein PefR in complex with heme and carbon monoxide 2021-01-15 2021-09-29 Nishinaga, M.,Sugimoto, H.,Nishitani, Y.,Nagai, S.,Nagatoishi, S.,Muraki, N.,Tosha, T.,Tsumoto, K.,Aono, S.,Shiro, Y.,Sawai, H. Heme controls the structural rearrangement of its sensor protein mediating the hemolytic bacterial survival. Commun Biol 2021 4 467 467 7DVU 33850260 Crystal structure of heme sensor protein PefR in complex with heme and cyanide 2021-01-15 2021-09-29 Nishinaga, M.,Sugimoto, H.,Nishitani, Y.,Nagai, S.,Nagatoishi, S.,Muraki, N.,Tosha, T.,Tsumoto, K.,Aono, S.,Shiro, Y.,Sawai, H. Heme controls the structural rearrangement of its sensor protein mediating the hemolytic bacterial survival. Commun Biol 2021 4 467 467 7DVV 33850260 Heme sensor protein PefR from Streptococcus agalactiae bound to operator DNA (28-mer) 2021-01-15 2021-09-29 Nishinaga, M.,Sugimoto, H.,Nishitani, Y.,Nagai, S.,Nagatoishi, S.,Muraki, N.,Tosha, T.,Tsumoto, K.,Aono, S.,Shiro, Y.,Sawai, H. Heme controls the structural rearrangement of its sensor protein mediating the hemolytic bacterial survival. Commun Biol 2021 4 467 467 7PN0 Crystal structure of the Phosphorybosylpyrophosphate synthetase II from Thermus thermophilus at R32 space group 2021-09-04 2021-09-29 Timofeev, V.I.,Abramchik, Y.A.,Kostromina, M.A.,Esipov, R.S.,Kuranova, I.P. Crystal structure of the Phosphorybosylpyrophosphate synthetase II from Thermus thermophilus at R32 space group To Be Published 0 0 0 0 7F8U 34556863 Crystal structure of the cholecystokinin receptor CCKAR in complex with lintitript 2021-07-02 2021-10-13 Zhang, X.,He, C.,Wang, M.,Zhou, Q.,Yang, D.,Zhu, Y.,Feng, W.,Zhang, H.,Dai, A.,Chu, X.,Wang, J.,Yang, Z.,Jiang, Y.,Sensfuss, U.,Tan, Q.,Han, S.,Reedtz-Runge, S.,Xu, H.E.,Zhao, S.,Wang, M.W.,Wu, B.,Zhao, Q. Structures of the human cholecystokinin receptors bound to agonists and antagonists. Nat.Chem.Biol. 2021 17 1230 1237 7F8Y 34556863 Crystal structure of the cholecystokinin receptor CCKAR in complex with devazepide 2021-07-02 2021-10-13 Zhang, X.,He, C.,Wang, M.,Zhou, Q.,Yang, D.,Zhu, Y.,Feng, W.,Zhang, H.,Dai, A.,Chu, X.,Wang, J.,Yang, Z.,Jiang, Y.,Sensfuss, U.,Tan, Q.,Han, S.,Reedtz-Runge, S.,Xu, H.E.,Zhao, S.,Wang, M.W.,Wu, B.,Zhao, Q. Structures of the human cholecystokinin receptors bound to agonists and antagonists. Nat.Chem.Biol. 2021 17 1230 1237 7DBK 34725423 Crystal structure of human LDHB in complex with NADH 2020-10-20 2021-10-20 Shibata, S.,Sogabe, S.,Miwa, M.,Fujimoto, T.,Takakura, N.,Naotsuka, A.,Kitamura, S.,Kawamoto, T.,Soga, T. Identification of the first highly selective inhibitor of human lactate dehydrogenase B. Sci Rep 2021 11 21353 21353 7F9X 34633867 Structure of the second OTU domain of LotA 2021-07-05 2021-10-20 Takekawa, N.,Kubori, T.,Iwai, T.,Nagai, H.,Imada, K. Structural Basis of Ubiquitin Recognition by a Bacterial Ovarian Tumor Deubiquitinase LotA. J.Bacteriol. 2022 204 0 0 7CJS 34716344 structure of aquaporin 2020-07-13 2021-11-03 Saitoh, Y.,Mitani-Ueno, N.,Saito, K.,Matsuki, K.,Huang, S.,Yang, L.,Yamaji, N.,Ishikita, H.,Shen, J.R.,Ma, J.F.,Suga, M. Structural basis for high selectivity of a rice silicon channel Lsi1. Nat Commun 2021 12 6236 6236 7ESY 34620712 Crystal structure of the complex formed by Wolbachia cytoplasmic incompatibility factors CidA and CidBND1-ND2 from wPip 2021-05-12 2021-11-10 Xiao, Y.,Chen, H.,Wang, H.,Zhang, M.,Chen, X.,Berk, J.M.,Zhang, L.,Wei, Y.,Li, W.,Cui, W.,Wang, F.,Wang, Q.,Cui, C.,Li, T.,Chen, C.,Ye, S.,Zhang, L.,Ji, X.,Huang, J.,Wang, W.,Wang, Z.,Hochstrasser, M.,Yang, H. Structural and mechanistic insights into the complexes formed by Wolbachia cytoplasmic incompatibility factors. Proc.Natl.Acad.Sci.USA 2021 118 0 0 7EH9 Crystal structure of the flagellar hook cap fragment from Salmonella enterica serovar Typhimurium 2021-03-29 2021-11-24 Matsunami, H.,Yoon, Y.H.,Imada, K.,Namba, K.,Samatey, F.A. Structure of the bacterial flagellar hook cap provides insights into a hook assembly mechanism Commun Biol 2021 4 1291 0 7EH9 Crystal structure of the flagellar hook cap fragment from Salmonella enterica serovar Typhimurium 2021-03-29 2021-11-24 Matsunami, H.,Yoon, Y.H.,Imada, K.,Namba, K.,Samatey, F.A. Structure of the bacterial flagellar hook cap provides insights into a hook assembly mechanism Commun Biol 2021 4 1291 0 7EHA Crystal structure of the flagellar hook cap from Salmonella enterica serovar Typhimurium 2021-03-29 2021-11-24 Matsunami, H.,Yoon, Y.H.,Imada, K.,Namba, K.,Samatey, F.A. Structure of the bacterial flagellar hook cap provides insights into a hook assembly mechanism Commun Biol 2021 4 1291 0 7EHA Crystal structure of the flagellar hook cap from Salmonella enterica serovar Typhimurium 2021-03-29 2021-11-24 Matsunami, H.,Yoon, Y.H.,Imada, K.,Namba, K.,Samatey, F.A. Structure of the bacterial flagellar hook cap provides insights into a hook assembly mechanism Commun Biol 2021 4 1291 0 7PO9 35580610 Crystal structure of ZAD-domain of M1BP protein from D.melanogaster 2021-09-08 2021-12-08 Bonchuk, A.N.,Boyko, K.M.,Nikolaeva, A.Y.,Burtseva, A.D.,Popov, V.O.,Georgiev, P.G. Structural insights into highly similar spatial organization of zinc-finger associated domains with a very low sequence similarity. Structure 2022 30 1004 0 7POK 35580610 Crystal structure of ZAD-domain of Pita protein from D.melanogaster 2021-09-09 2021-12-08 Bonchuk, A.N.,Boyko, K.M.,Nikolaeva, A.Y.,Burtseva, A.D.,Popov, V.O.,Georgiev, P.G. Structural insights into highly similar spatial organization of zinc-finger associated domains with a very low sequence similarity. Structure 2022 30 1004 0 7DON Structure of tubulin H392D mutant from Odinarchaeota 2020-12-14 2021-12-22 Robinson, R.C.,Akil, C. Structure of tubulin H392D mutant from Odinarchaeota To Be Published 0 0 0 0 7EO9 35132656 Crystal structure of KIF1A Motor-Neck domain with ADP-Mg-AlFx 2021-04-21 2021-12-29 Morikawa, M.,Jerath, N.U.,Ogawa, T.,Morikawa, M.,Tanaka, Y.,Shy, M.E.,Zuchner, S.,Hirokawa, N. A neuropathy-associated kinesin KIF1A mutation hyper-stabilizes the motor-neck interaction during the ATPase cycle. Embo J. 2022 41 0 0 7EOB 35132656 Crystal structure of KIF1A Motor-Neck domain E239K mutant with ADP-Mg-AlFx 2021-04-21 2021-12-29 Morikawa, M.,Jerath, N.U.,Ogawa, T.,Morikawa, M.,Tanaka, Y.,Shy, M.E.,Zuchner, S.,Hirokawa, N. A neuropathy-associated kinesin KIF1A mutation hyper-stabilizes the motor-neck interaction during the ATPase cycle. 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Curr Res Struct Biol 2021 3 192 205 7W47 35604136 Crystal structure of the gastric proton pump complexed with tegoprazan 2021-11-26 2022-01-05 Tanaka, S.,Morita, M.,Yamagishi, T.,Madapally, H.V.,Hayashida, K.,Khandelia, H.,Gerle, C.,Shigematsu, H.,Oshima, A.,Abe, K. Structural Basis for Binding of Potassium-Competitive Acid Blockers to the Gastric Proton Pump. J.Med.Chem. 2022 65 7843 7853 7W48 35604136 Crystal structure of the gastric proton pump complexed with PF-03716556 2021-11-26 2022-01-05 Tanaka, S.,Morita, M.,Yamagishi, T.,Madapally, H.V.,Hayashida, K.,Khandelia, H.,Gerle, C.,Shigematsu, H.,Oshima, A.,Abe, K. Structural Basis for Binding of Potassium-Competitive Acid Blockers to the Gastric Proton Pump. J.Med.Chem. 2022 65 7843 7853 7W49 35604136 Crystal structure of the gastric proton pump complexed with soraprazan 2021-11-26 2022-01-05 Tanaka, S.,Morita, M.,Yamagishi, T.,Madapally, H.V.,Hayashida, K.,Khandelia, H.,Gerle, C.,Shigematsu, H.,Oshima, A.,Abe, K. 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Open Biology 2022 12 220083 220083 7VBU Crystal structure of human pyruvate dehydrogenase kinase 2 in complex with compound 5 2021-09-01 2022-02-16 Bessho, Y.,Akaki, T.,Hara, Y.,Yamakawa, M.,Obika, S.,Mori, G.,Ubukata, M.,Yasue, K.,Nakane, Y.,Terasako, Y.,Orita, T.,Doi, S.,Iwanaga, T.,Fujishima, A.,Adachi, T.,Ueno, H.,Motomura, T. Structure-based drug design of novel and highly potent pyruvate dehydrogenase kinase inhibitors. Bioorg.Med.Chem. 2021 52 116514 0 7VBV Crystal structure of human pyruvate dehydrogenase kinase 2 in complex with compound 7 2021-09-01 2022-02-16 Bessho, Y.,Akaki, T.,Hara, Y.,Yamakawa, M.,Obika, S.,Mori, G.,Ubukata, M.,Yasue, K.,Nakane, Y.,Terasako, Y.,Orita, T.,Doi, S.,Iwanaga, T.,Fujishima, A.,Adachi, T.,Ueno, H.,Motomura, T. Structure-based drug design of novel and highly potent pyruvate dehydrogenase kinase inhibitors. Bioorg.Med.Chem. 2021 52 116514 0 7E9U Trehalase of Arabidopsis thaliana 2021-03-05 2022-03-09 Taguchi, Y.,Saburi, W.,Yu, J.,Imai, R.,Yao, M.,Mori, H. pH-dependent alteration of substrate specificity of plant trehalase and its molecular mechanism To Be Published 0 0 0 0 7EAW Trehalase of Arabidopsis thaliana acid mutant -D380A trehalose complex 2021-03-08 2022-03-16 Taguchi, Y.,Saburi, W.,Yu, J.,Imai, R.,Yao, M.,Mori, H. pH-dependent alteration of substrate specificity of plant trehalase and its molecular mechanism To Be Published 0 0 0 0 7F3A 34965581 Arabidopsis thaliana GH1 beta-glucosidase AtBGlu42 2021-06-16 2022-03-16 Horikoshi, S.,Saburi, W.,Yu, J.,Matsuura, H.,Cairns, J.R.K.,Yao, M.,Mori, H. Substrate specificity of glycoside hydrolase family 1 beta-glucosidase AtBGlu42 from Arabidopsis thaliana and its molecular mechanism. Biosci.Biotechnol.Biochem. 2022 86 231 245 7EVE 35333570 Odinarchaeota tubulin (OdinTubulin) H393D mutant, in a protofilament arrangement, bound to 100% GDP and 2 Na+ 2021-05-21 2022-03-23 Akil, C.,Ali, S.,Tran, L.T.,Gaillard, J.,Li, W.,Hayashida, K.,Hirose, M.,Kato, T.,Oshima, A.,Fujishima, K.,Blanchoin, L.,Narita, A.,Robinson, R.C. Structure and dynamics of Odinarchaeota tubulin and the implications for eukaryotic microtubule evolution. Sci Adv 2022 8 0 0 7EVG 35333570 Apo Odinarchaeota tubulin (OdinTubulin) H393D mutant, in a psuedo-protofilament arrangement 2021-05-21 2022-03-23 Akil, C.,Ali, S.,Tran, L.T.,Gaillard, J.,Li, W.,Hayashida, K.,Hirose, M.,Kato, T.,Oshima, A.,Fujishima, K.,Blanchoin, L.,Narita, A.,Robinson, R.C. Structure and dynamics of Odinarchaeota tubulin and the implications for eukaryotic microtubule evolution. Sci Adv 2022 8 0 0 7F1A 35333570 Odinarchaeota tubulin (OdinTubulin) H393D mutant, in a protofilament arrangement, bound 78% GTP/22% GDP 1 K+, 1 Mg2+ 2021-06-08 2022-03-23 Akil, C.,Ali, S.,Tran, L.T.,Gaillard, J.,Li, W.,Hayashida, K.,Hirose, M.,Kato, T.,Oshima, A.,Fujishima, K.,Blanchoin, L.,Narita, A.,Robinson, R.C. Structure and dynamics of Odinarchaeota tubulin and the implications for eukaryotic microtubule evolution. Sci Adv 2022 8 0 0 7F1B 35333570 Odinarchaeota tubulin H393D mutant, in a pseudo protofilament arrangement, after GTP hydrolysis and phosphate release 2021-06-08 2022-03-23 Akil, C.,Ali, S.,Tran, L.T.,Gaillard, J.,Li, W.,Hayashida, K.,Hirose, M.,Kato, T.,Oshima, A.,Fujishima, K.,Blanchoin, L.,Narita, A.,Robinson, R.C. Structure and dynamics of Odinarchaeota tubulin and the implications for eukaryotic microtubule evolution. Sci Adv 2022 8 0 0 7QGK 35328628 The mRubyFT protein, Genetically Encoded Blue-to-Red Fluorescent Timer in its red state 2021-12-08 2022-03-23 Subach, O.M.,Tashkeev, A.,Vlaskina, A.V.,Petrenko, D.E.,Gaivoronskii, F.A.,Nikolaeva, A.Y.,Ivashkina, O.I.,Anokhin, K.V.,Popov, V.O.,Boyko, K.M.,Subach, F.V. The mRubyFT Protein, Genetically Encoded Blue-to-Red Fluorescent Timer. Int J Mol Sci 2022 23 0 0 7EGO X-ray structure of the human heart fatty acid-binding protein complexed with the fluorescent probe HA527 2021-03-24 2022-03-30 Matsuoka, S.,Tsuchikawa, H.,Sonoyama, M.,Inoue, Y.,Hayashi, F.,Sugiyama, S. X-ray structure of the human heart fatty acid-binding protein complexed with the fluorescent probe HA527 To Be Published 0 0 0 0 7EZC 35546802 Adenosine A2a receptor mutant-I92N 2021-06-01 2022-04-13 Cui, M.,Zhou, Q.,Xu, Y.,Weng, Y.,Yao, D.,Zhao, S.,Song, G. Crystal structure of a constitutive active mutant of adenosine A 2A receptor. Iucrj 2022 9 333 341 7Z79 Crystal structure of aminotransferase-like protein from Variovorax paradoxus 2022-03-15 2022-04-13 Boyko, K.M.,Matyuta, I.O.,Nikolaeva, A.Y.,Rakitina, T.V.,Popov, V.O.,Bezsudnova, E.Y.,Khrenova, M.G. A Puzzling Protein from Variovorax paradoxus Has a PLP Fold Type IV Transaminase Structure and Binds PLP without Catalytic Lysine Crystals 2022 12 0 0 7EMW 35352458 Crystal Structure of the HasAp V37G/K59Q Mutant Capturing Iron Tetraphenylporphyrin 2021-04-14 2022-04-20 Shisaka, Y.,Sakakibara, E.,Suzuki, K.,Stanfield, J.K.,Onoda, H.,Ueda, G.,Hatano, M.,Sugimoto, H.,Shoji, O. Tetraphenylporphyrin Enters the Ring: First Example of a Complex between Highly Bulky Porphyrins and a Protein. Chembiochem 2022 23 0 0 7QHI 35202176 Crystal structure of cytotoxin 13 from Naja naja, hexagonal form 2021-12-12 2022-04-27 Dubovskii, P.V.,Dubova, K.M.,Bourenkov, G.,Starkov, V.G.,Konshina, A.G.,Efremov, R.G.,Utkin, Y.N.,Samygina, V.R. Variability in the Spatial Structure of the Central Loop in Cobra Cytotoxins Revealed by X-ray Analysis and Molecular Modeling. Toxins 2022 14 0 0 7EP7 35687681 The complex structure of Gpsm2 and Whirlin 2021-04-26 2022-05-04 Shi, Y.,Lin, L.,Wang, C.,Zhu, J. Promotion of row 1-specific tip complex condensates by Gpsm2-G alpha i provides insights into row identity of the tallest stereocilia. Sci Adv 2022 8 0 0 7WYS 35380894 Crystal structures of Na+,K+-ATPase in complex with istaroxime 2022-02-16 2022-05-04 Kanai, R.,Cornelius, F.,Vilsen, B.,Toyoshima, C. Cryoelectron microscopy of Na + ,K + -ATPase in the two E2P states with and without cardiotonic steroids. Proc.Natl.Acad.Sci.USA 2022 119 0 0 7WYT 35380894 Crystal structures of Na+,K+-ATPase in complex with ouabain 2022-02-16 2022-05-04 Kanai, R.,Cornelius, F.,Vilsen, B.,Toyoshima, C. Cryoelectron microscopy of Na + ,K + -ATPase in the two E2P states with and without cardiotonic steroids. Proc.Natl.Acad.Sci.USA 2022 119 0 0 7VLC 35797404 Oxy-deoxy intermediate of V2 hemoglobin at 78% oxygen saturation 2021-10-02 2022-05-18 Numoto, N.,Onoda, S.,Kawano, Y.,Okumura, H.,Baba, S.,Fukumori, Y.,Miki, K.,Ito, N. Structures of oxygen dissociation intermediates of 400 kDa V2 hemoglobin provide coarse snapshots of the protein allostery. Biophys Physicobio. 2022 19 1 10 7VLD 35797404 Oxy-deoxy intermediate of V2 hemoglobin at 69% oxygen saturation 2021-10-02 2022-05-18 Numoto, N.,Onoda, S.,Kawano, Y.,Okumura, H.,Baba, S.,Fukumori, Y.,Miki, K.,Ito, N. Structures of oxygen dissociation intermediates of 400 kDa V2 hemoglobin provide coarse snapshots of the protein allostery. Biophys Physicobio. 2022 19 1 10 7VLF 35797404 Oxy-deoxy intermediate of V2 hemoglobin at 26% oxygen saturation 2021-10-02 2022-05-18 Numoto, N.,Onoda, S.,Kawano, Y.,Okumura, H.,Baba, S.,Fukumori, Y.,Miki, K.,Ito, N. Structures of oxygen dissociation intermediates of 400 kDa V2 hemoglobin provide coarse snapshots of the protein allostery. Biophys Physicobio. 2022 19 1 10 7EWS Crystal structure of arginine kinase (AK3) from the ciliate Paramecium tetraurelia 2021-05-26 2022-06-01 Otsuka, Y.,Yokota, J.,Yano, D.,Uda, K.,Suzuki, T.,Sugiyama, S. Crystal structure of arginine kinase (AK3) from the ciliate Paramecium tetraurelia To Be Published 0 0 0 0 7WW8 35594391 Crystal structure of MutT-8-oxo-dGTP complex: Reaction for 5 hr in 5 mM Mn2+ 2022-02-12 2022-06-01 Nakamura, T.,Yamagata, Y. Visualization of mutagenic nucleotide processing by Escherichia coli MutT, a Nudix hydrolase. Proc.Natl.Acad.Sci.USA 2022 119 0 0 7EZD Thorarchaeota Rab co-crystallized with GTP gamma-S 2021-06-01 2022-06-08 Robinson, R.C.,Tran, L.T. Structure of Thor-Rab To Be Published 0 0 0 0 7V5Q 35496441 The dimeric structure of G80A/H81A/L137E myoglobin 2021-08-17 2022-06-29 Xie, C.,Shimoyama, H.,Yamanaka, M.,Nagao, S.,Komori, H.,Shibata, N.,Higuchi, Y.,Shigeta, Y.,Hirota, S. Experimental and theoretical study on converting myoglobin into a stable domain-swapped dimer by utilizing a tight hydrogen bond network at the hinge region. Rsc Adv 2021 11 37604 37611 7X5N 35739195 Crystal structure of E. faecium SHMT in complex with (+)-SHIN-1 and PLP-Ser 2022-03-05 2022-07-06 Makino, Y.,Oe, C.,Iwama, K.,Suzuki, S.,Nishiyama, A.,Hasegawa, K.,Okuda, H.,Hirata, K.,Ueno, M.,Kawaji, K.,Sasano, M.,Usui, E.,Hosaka, T.,Yabuki, Y.,Shirouzu, M.,Katsumi, M.,Murayama, K.,Hayashi, H.,Kodama, E.N. Serine hydroxymethyltransferase as a potential target of antibacterial agents acting synergistically with one-carbon metabolism-related inhibitors. Commun Biol 2022 5 619 619 7X5O 35739195 Crystal structure of E. faecium SHMT in complex with Me-THF and PLP-Gly 2022-03-05 2022-07-06 Makino, Y.,Oe, C.,Iwama, K.,Suzuki, S.,Nishiyama, A.,Hasegawa, K.,Okuda, H.,Hirata, K.,Ueno, M.,Kawaji, K.,Sasano, M.,Usui, E.,Hosaka, T.,Yabuki, Y.,Shirouzu, M.,Katsumi, M.,Murayama, K.,Hayashi, H.,Kodama, E.N. Serine hydroxymethyltransferase as a potential target of antibacterial agents acting synergistically with one-carbon metabolism-related inhibitors. Commun Biol 2022 5 619 619 7FBN X-ray structure of high-strength hydrogel-grown FABP3 crystal soaked in 50% DMF solution containing dibutylhydroxytoluene (BHT) 2021-07-11 2022-07-13 Sugiyama, S.,Kakinouchi, K.,Matsuoka, S.,Tsuchikawa, H.,Sonoyama, M.,Inoue, Y.,Hayashi, F.,Murata, M. X-ray structure of high-strength hydrogel-grown FABP3 crystal soaked in 50% DMF solution containing dibutylhydroxytoluene (BHT) To Be Published 0 0 0 0 7XVY 35810932 Human Estrogen Receptor beta Ligand-binding Domain in Complex with S-DPN 2022-05-25 2022-07-20 Handa, C.,Yamazaki, Y.,Yonekubo, S.,Furuya, N.,Momose, T.,Ozawa, T.,Furuishi, T.,Fukuzawa, K.,Yonemochi, E. Evaluating the correlation of binding affinities between isothermal titration calorimetry and fragment molecular orbital method of estrogen receptor beta with diarylpropionitrile (DPN) or DPN derivatives. J.Steroid Biochem.Mol.Biol. 2022 222 106152 106152 7SUS 35817871 Crystal structure of Apelin receptor in complex with small molecule 2021-11-18 2022-07-27 Yue, Y.,Liu, L.,Wu, L.J.,Wu, Y.,Wang, L.,Li, F.,Liu, J.,Han, G.W.,Chen, B.,Lin, X.,Brouillette, R.L.,Breault, E.,Longpre, J.M.,Shi, S.,Lei, H.,Sarret, P.,Stevens, R.C.,Hanson, M.A.,Xu, F. Structural insight into apelin receptor-G protein stoichiometry. Nat.Struct.Mol.Biol. 2022 29 688 697 7XN9 35739238 Crystal structure of SSTR2 and L-054,522 complex 2022-04-28 2022-08-03 Zhao, W.,Han, S.,Qiu, N.,Feng, W.,Lu, M.,Zhang, W.,Wang, M.,Zhou, Q.,Chen, S.,Xu, W.,Du, J.,Chu, X.,Yi, C.,Dai, A.,Hu, L.,Shen, M.Y.,Sun, Y.,Zhang, Q.,Ma, Y.,Zhong, W.,Yang, D.,Wang, M.W.,Wu, B.,Zhao, Q. Structural insights into ligand recognition and selectivity of somatostatin receptors. Cell Res. 2022 32 761 772 7XNA 35739238 Crystal structure of somatostatin receptor 2 (SSTR2) with peptide antagonist CYN 154806 2022-04-28 2022-08-03 Zhao, W.,Han, S.,Qiu, N.,Feng, W.,Lu, M.,Zhang, W.,Wang, M.,Zhou, Q.,Chen, S.,Xu, W.,Du, J.,Chu, X.,Yi, C.,Dai, A.,Hu, L.,Shen, M.Y.,Sun, Y.,Zhang, Q.,Ma, Y.,Zhong, W.,Yang, D.,Wang, M.W.,Wu, B.,Zhao, Q. Structural insights into ligand recognition and selectivity of somatostatin receptors. Cell Res. 2022 32 761 772 7V1O Crystal structure of mouse cytosolic sulfotransferase mSULT3A1 2021-08-05 2022-08-10 Teramoto, T.,Inada, K.,Kurogi, K.,Sakakibara, Y.,Kakuta, Y. Crystal structure of SULT3A1, mouse amine N-sulfotransferase To Be Published 0 0 0 0 7YHJ Effector binding domain of LysR-Type transcription factor LrhA from E. coli 2022-07-13 2022-08-10 Xie, C.,Jiang, X. Effector binding domain of LysR-Type transcription factor LrhA from E. coli To Be Published 0 0 0 0 7VM1 35352458 Crystal Structure of HasAp Capturing Iron Tetra(4-pyridyl)porphyrin 2021-10-06 2022-08-17 Shisaka, Y.,Sakakibara, E.,Suzuki, K.,Stanfield, J.K.,Onoda, H.,Ueda, G.,Hatano, M.,Sugimoto, H.,Shoji, O. Tetraphenylporphyrin Enters the Ring: First Example of a Complex between Highly Bulky Porphyrins and a Protein. Chembiochem 2022 23 0 0 7VTI 36027912 Crystal structure of the Cas13bt3-crRNA binary complex 2021-10-29 2022-08-24 Nakagawa, R.,Kannan, S.,Altae-Tran, H.,Takeda, S.N.,Tomita, A.,Hirano, H.,Kusakizako, T.,Nishizawa, T.,Yamashita, K.,Zhang, F.,Nishimasu, H.,Nureki, O. Structure and engineering of the minimal type VI CRISPR-Cas13bt3. Mol.Cell 2022 82 3178 0 8DOY 36338434 Crystal structure of SARS-CoV-2 main protease in complex with an inhibitor TKB-198 2022-07-14 2022-08-24 Tsuji, K.,Ishii, T.,Kobayakawa, T.,Higashi-Kuwata, N.,Azuma, C.,Nakayama, M.,Onishi, T.,Nakano, H.,Wada, N.,Hori, M.,Shinohara, K.,Miura, Y.,Kawada, T.,Hayashi, H.,Hattori, S.I.,Bulut, H.,Das, D.,Takamune, N.,Kishimoto, N.,Saruwatari, J.,Okamura, T.,Nakano, K.,Misumi, S.,Mitsuya, H.,Tamamura, H. Potent and biostable inhibitors of the main protease of SARS-CoV-2. Iscience 2022 25 105365 105365 8DPR 36841831 Crystal structure of SARS-CoV-2 main protease in complex with inhibitor TKB-248 2022-07-16 2022-08-24 Higashi-Kuwata, N.,Tsuji, K.,Hayashi, H.,Bulut, H.,Kiso, M.,Imai, M.,Ogata-Aoki, H.,Ishii, T.,Kobayakawa, T.,Nakano, K.,Takamune, N.,Kishimoto, N.,Hattori, S.I.,Das, D.,Uemura, Y.,Shimizu, Y.,Aoki, M.,Hasegawa, K.,Suzuki, S.,Nishiyama, A.,Saruwatari, J.,Shimizu, Y.,Sukenaga, Y.,Takamatsu, Y.,Tsuchiya, K.,Maeda, K.,Yoshimura, K.,Iida, S.,Ozono, S.,Suzuki, T.,Okamura, T.,Misumi, S.,Kawaoka, Y.,Tamamura, H.,Mitsuya, H. Identification of SARS-CoV-2 M pro inhibitors containing P1' 4-fluorobenzothiazole moiety highly active against SARS-CoV-2. Nat Commun 2023 14 1076 1076 8AHU 37331714 Crystal structure of D-amino acid aminotrensferase from Haliscomenobacter hydrossis complexed with D-cycloserine 2022-07-22 2022-08-31 Bakunova, A.K.,Matyuta, I.O.,Nikolaeva, A.Y.,Boyko, K.M.,Popov, V.O.,Bezsudnova, E.Y. Mechanism of D-Cycloserine Inhibition of D-Amino Acid Transaminase from Haliscomenobacter hydrossis. Biochemistry Mosc. 2023 88 687 697 7WVA 36226040 Crystal structure of mouse Cryptochrome 1 in complex with TH401 compound 2022-02-10 2022-09-07 Yagi, M.,Miller, S.,Nagai, Y.,Inuki, S.,Sato, A.,Hirota, T. A methylbenzimidazole derivative regulates mammalian circadian rhythms by targeting Cryptochrome proteins. F1000Res 2022 11 1016 1016 7YVZ Structure of Caenorhabditis elegans CISD-1/mitoNEET 2022-08-20 2022-10-19 Boos, J.R.,Jandrain, H.N.,Hagiuda, E.,Taguchi, A.T.,Hasegawa, K.,Fedun, B.L.,Taylor, S.J.,Elad, S.M.,Faber, S.E.,Kumasaka, T.,Iwasaki, T.,Geldenhuys, W.J. Structure and biological evaluation of Caenorhabditis elegans CISD-1/mitoNEET, a KLP-17 tail domain homologue, supports attenuation of paraquat-induced oxidative stress through a p38 MAPK-mediated antioxidant defense response Advances in Redox Research 2022 6 100048 0 7PP1 36306820 Crystal structure of the P2Y12 receptor in complex with the inverse agonist selatogrel. 2021-09-13 2022-11-02 Pons, V.,Garcia, C.,Tidten-Luksch, N.,Mac Sweeney, A.,Caroff, E.,Gales, C.,Riederer, M.A. Inverse agonist efficacy of selatogrel blunts constitutive P2Y12 receptor signaling by inducing the inactive receptor conformation. Biochem Pharmacol 2022 206 115291 115291 7W05 12 mutant Ribonuclease from Hericium erinaceus GMP binding form 2021-11-17 2022-11-23 Takebe, K.,Chida, T.,Suzuki, M.,Uzawa, N.,Kobayashi, H. 12 mutant Ribonuclease from Hericium erinaceus GMP binding form To Be Published 0 0 0 0 7YQ2 36334624 Crystal structure of photosystem II expressing psbA2 gene only 2022-08-05 2022-11-30 Nakajima, Y.,Ugai-Amo, N.,Tone, N.,Nakagawa, A.,Iwai, M.,Ikeuchi, M.,Sugiura, M.,Suga, M.,Shen, J.R. Crystal structures of photosystem II from a cyanobacterium expressing psbA 2 in comparison to psbA 3 reveal differences in the D1 subunit. J.Biol.Chem. 2022 298 102668 102668 7YQ7 36334624 Crystal structure of photosystem II expressing psbA3 gene only 2022-08-05 2022-11-30 Nakajima, Y.,Ugai-Amo, N.,Tone, N.,Nakagawa, A.,Iwai, M.,Ikeuchi, M.,Sugiura, M.,Suga, M.,Shen, J.R. Crystal structures of photosystem II from a cyanobacterium expressing psbA 2 in comparison to psbA 3 reveal differences in the D1 subunit. J.Biol.Chem. 2022 298 102668 102668 7XQN 36417431 InDel-mutant malate dehydrogenase from E. coli 2022-05-08 2022-12-07 Toledo-Patino, S.,Pascarelli, S.,Uechi, G.I.,Laurino, P. Insertions and deletions mediated functional divergence of Rossmann fold enzymes. Proc.Natl.Acad.Sci.USA 2022 119 0 0 7W97 Crystal Structure of the CYP102A1 (P450BM3) Heme Domain with N-Hexadecanoyl-L-Homoserine 2021-12-09 2022-12-14 Karasawa, M.,Stanfield, J.K.,Kasai, C.,Sugimoto, H.,Shoji, O. Crystal Structure of the CYP102A1 (P450BM3) Heme Domain with N-Hexadecanoyl-L-Homoserine To Be Published 0 0 0 0 8HDD Complex structure of catalytic, small, and a partial electron transfer subunits from Burkholderia cepacia FAD glucose dehydrogenase 2022-11-04 2022-12-14 Okuda-Shimazaki, J.,Yoshida, H.,Lee, I.,Kojima, K.,Suzuki, N.,Tsugawa, W.,Yamada, M.,Inaka, K.,Tanaka, H.,Sode, K. Microgravity environment grown crystal structure information based engineering of direct electron transfer type glucose dehydrogenase Commun Biol 2022 5 1334 0 8HDD Complex structure of catalytic, small, and a partial electron transfer subunits from Burkholderia cepacia FAD glucose dehydrogenase 2022-11-04 2022-12-14 Okuda-Shimazaki, J.,Yoshida, H.,Lee, I.,Kojima, K.,Suzuki, N.,Tsugawa, W.,Yamada, M.,Inaka, K.,Tanaka, H.,Sode, K. Microgravity environment grown crystal structure information based engineering of direct electron transfer type glucose dehydrogenase Commun Biol 2022 5 1334 0 7YWS Modified oligopeptidase B from S. proteomaculans in intermediate conformation with 3 spermine molecules at 1.7 A resolution 2022-02-14 2023-01-18 Britikov, V.V.,Timofeev, V.I.,Petrenko, D.E.,Britikova, E.V.,Nikolaeva, A.Y.,Vlaskina, A.V.,Boyko, K.M.,Mikhailova, A.G.,Rakitina, T.V. Elucidation of the Conformational Transition of Oligopeptidase B by an Integrative Approach Based on the Combination of X-ray, SAXS, and Essential Dynamics Sampling Simulation Crystals 2022 12 0 0 7YX7 Modified oligopeptidase B from S. proteomaculans in intermediate conformation with 1 spermine molecule at 1.72 A resolution 2022-02-15 2023-01-18 Britikov, V.V.,Timofeev, V.I.,Petrenko, D.E.,Britikova, E.V.,Nikolaeva, A.Y.,Vlaskina, A.V.,Boyko, K.M.,Mikhailova, A.G.,Rakitina, T.V. Elucidation of the Conformational Transition of Oligopeptidase B by an Integrative Approach Based on the Combination of X-ray, SAXS, and Essential Dynamics Sampling Simulation Crystals 2022 12 0 0 7ZJZ catalytically non active S532A mutant of oligopeptidase B from S. proteomaculans 2022-04-12 2023-01-18 Britikov, V.V.,Timofeev, V.I.,Petrenko, D.E.,Britikova, E.V.,Nikolaeva, A.Y.,Vlaskina, A.V.,Boyko, K.M.,Mikhailova, A.G.,Rakitina, T.V. Elucidation of the Conformational Transition of Oligopeptidase B by an Integrative Approach Based on the Combination of X-ray, SAXS, and Essential Dynamics Sampling Simulation Crystals 2022 12 0 0 8D0A Crystal structure of human USP30 in complex with a covalent inhibitor 829 and a Fab 2022-05-25 2023-02-01 Song, X.,Butler, J.,Hao, Y. TBD To Be Published 0 0 0 0 8D1T Crystal structure of human USP30 in complex with a covalent inhibitor 552 and a Fab 2022-05-27 2023-02-01 Song, X.,Butler, J.,Li, C.,Zhang, K.,Zhang, D.,Hao, Y. TBD To Be Published 0 0 0 0 8HPK 37012268 Crystal structure of the bacterial oxalate transporter OxlT in an oxalate-bound occluded form 2022-12-12 2023-02-15 Jaunet-Lahary, T.,Shimamura, T.,Hayashi, M.,Nomura, N.,Hirasawa, K.,Shimizu, T.,Yamashita, M.,Tsutsumi, N.,Suehiro, Y.,Kojima, K.,Sudo, Y.,Tamura, T.,Iwanari, H.,Hamakubo, T.,Iwata, S.,Okazaki, K.I.,Hirai, T.,Yamashita, A. Structure and mechanism of oxalate transporter OxlT in an oxalate-degrading bacterium in the gut microbiota. Nat Commun 2023 14 1730 1730 7YWZ Modified oligopeptidase B from S. proteomaculans in intermediate conformation with 4 spermine molecules at 1.75 A resolution 2022-02-15 2023-02-22 Petrenko, D.E.,Boyko, K.M.,Nikolaeva, A.Y.,Vlaskina, A.V.,Mikhailova, A.G.,Timofeev, V.I.,Rakitina, T.V. Modified oligopeptidase B from S. proteomaculans in intermediate conformation with 4 spermine molecules at 1.75 A resolution To Be Published 0 0 0 0 7XJC Crystal structure of bacteriorhodopsin in the ground and K states after green laser irradiation 2022-04-16 2023-03-01 Taguchi, S.,Niwa, S.,Dao, H.A.,Tanaka, Y.,Takeda, R.,Fukai, S.,Hasegawa, K.,Takeda, K. Detailed analysis of distorted retinal and its interaction with surrounding residues in the K intermediate of bacteriorhodopsin Commun Biol 2023 6 190 0 7XJE Crystal structure of bacteriorhodopsin in the K state refined against the extrapolated dataset 2022-04-16 2023-03-01 Taguchi, S.,Niwa, S.,Dao, H.A.,Tanaka, Y.,Takeda, R.,Fukai, S.,Hasegawa, K.,Takeda, K. Detailed analysis of distorted retinal and its interaction with surrounding residues in the K intermediate of bacteriorhodopsin Commun Biol 2023 6 190 0 8C0N 36834686 Crystal structure of the red form of the mTagFT fluorescent timer 2022-12-19 2023-03-08 Subach, O.M.,Vlaskina, A.V.,Agapova, Y.K.,Nikolaeva, A.Y.,Anokhin, K.V.,Piatkevich, K.D.,Patrushev, M.V.,Boyko, K.M.,Subach, F.V. Blue-to-Red TagFT, mTagFT, mTsFT, and Green-to-FarRed mNeptusFT2 Proteins, Genetically Encoded True and Tandem Fluorescent Timers. Int J Mol Sci 2023 24 0 0 7UE1 37436982 HIV-1 Integrase Catalytic Core Domain Mutant (KGD) in Complex with Inhibitor GRL-142 2022-03-21 2023-03-22 Aoki, M.,Aoki-Ogata, H.,Bulut, H.,Hayashi, H.,Takamune, N.,Kishimoto, N.,Tanaka, H.,Higashi-Kuwata, N.,Hattori, S.I.,Das, D.,Venkateswara Rao, K.,Iwama, K.,Davis, D.A.,Hasegawa, K.,Murayama, K.,Yarchoan, R.,Ghosh, A.K.,Pau, A.K.,Machida, S.,Misumi, S.,Mitsuya, H. GRL-142 binds to and impairs HIV-1 integrase nuclear localization signal and potently suppresses highly INSTI-resistant HIV-1 variants. Sci Adv 2023 9 0 0 7XJD 36808185 Crystal structure of bacteriorhodopsin in the ground state by red laser irradiation 2022-04-16 2023-03-22 Taguchi, S.,Niwa, S.,Dao, H.A.,Tanaka, Y.,Takeda, R.,Fukai, S.,Hasegawa, K.,Takeda, K. Detailed analysis of distorted retinal and its interaction with surrounding residues in the K intermediate of bacteriorhodopsin. Commun Biol 2023 6 190 190 8I18 36914375 Crystal structure of human MTH1(G2K mutant) in complex with 8-oxo-dGTP at pH 7.7 2023-01-13 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 8I1A 36914375 Crystal structure of human MTH1(G2K mutant) in complex with 8-oxo-dGTP at pH 8.6 2023-01-13 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 8I1C 36914375 Crystal structure of human MTH1(G2K mutant) in complex with 8-oxo-dGTP at pH 9.1 2023-01-13 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 7XGI 37436881 COMT SAH Mg opicapone complex 2022-04-04 2023-04-12 Takebe, K.,Suzuki, M.,Kuwada-Kusunose, T.,Shirai, S.,Fukuzawa, K.,Takamiya, T.,Uzawa, N.,Iijima, H. Structural and Computational Analyses of the Unique Interactions of Opicapone in the Binding Pocket of Catechol O -Methyltransferase: A Crystallographic Study and Fragment Molecular Orbital Analyses. J.Chem.Inf.Model. 2023 63 4468 4476 7ZL9 36973264 Crystal structure of human GPCR Niacin receptor (HCA2) 2022-04-14 2023-04-12 Yang, Y.,Kang, H.J.,Gao, R.,Wang, J.,Han, G.W.,DiBerto, J.F.,Wu, L.,Tong, J.,Qu, L.,Wu, Y.,Pileski, R.,Li, X.,Zhang, X.C.,Zhao, S.,Kenakin, T.,Wang, Q.,Stevens, R.C.,Peng, W.,Roth, B.L.,Rao, Z.,Liu, Z.J. Structural insights into the human niacin receptor HCA2-G i signalling complex. Nat Commun 2023 14 1692 1692 7ZLY 36973264 Crystal structure of human GPCR Niacin receptor (HCA2) expressed from Spodoptera frugiperda 2022-04-17 2023-04-12 Yang, Y.,Kang, H.J.,Gao, R.,Wang, J.,Han, G.W.,DiBerto, J.F.,Wu, L.,Tong, J.,Qu, L.,Wu, Y.,Pileski, R.,Li, X.,Zhang, X.C.,Zhao, S.,Kenakin, T.,Wang, Q.,Stevens, R.C.,Peng, W.,Roth, B.L.,Rao, Z.,Liu, Z.J. Structural insights into the human niacin receptor HCA2-G i signalling complex. Nat Commun 2023 14 1692 1692 8IBK 37049872 Crystal structure of Bacillus sp. AHU2216 GH13_31 Alpha-glucosidase E256Q/N258G in complex with maltotriose 2023-02-10 2023-05-03 Auiewiriyanukul, W.,Saburi, W.,Ota, T.,Yu, J.,Kato, K.,Yao, M.,Mori, H. Alteration of Substrate Specificity and Transglucosylation Activity of GH13_31 alpha-Glucosidase from Bacillus sp. AHU2216 through Site-Directed Mutagenesis of Asn258 on beta → alpha Loop 5. Molecules 2023 28 0 0 8IDS 37049872 Crystal structure of Bacillus sp. AHU2216 GH13_31 Alpha-glucosidase E256Q/N258P in complex with maltotriose 2023-02-14 2023-05-03 Auiewiriyanukul, W.,Saburi, W.,Ota, T.,Yu, J.,Kato, K.,Yao, M.,Mori, H. Alteration of Substrate Specificity and Transglucosylation Activity of GH13_31 alpha-Glucosidase from Bacillus sp. AHU2216 through Site-Directed Mutagenesis of Asn258 on beta → alpha Loop 5. Molecules 2023 28 0 0 7XJB 37436881 Rat-COMT, opicapone,SAM and Mg bond 2022-04-15 2023-05-31 Takebe, K.,Suzuki, M.,Kuwada-Kusunose, T.,Shirai, S.,Fukuzawa, K.,Takamiya, T.,Uzawa, N.,Iijima, H. Structural and Computational Analyses of the Unique Interactions of Opicapone in the Binding Pocket of Catechol O -Methyltransferase: A Crystallographic Study and Fragment Molecular Orbital Analyses. J.Chem.Inf.Model. 2023 63 4468 4476 8ONO Modified oligopeptidase B from S. proteamaculans in intermediate conformation with 5 spermine molecule at 1.65 A resolution 2023-04-03 2023-05-31 Petrenko, D.E.,Boyko, K.M.,Nikolaeva, A.Y.,Vlaskina, A.V.,Mikhailova, A.G.,Timofeev, V.I.,Rakitina, T.V. Modified oligopeptidase B from S. proteomaculans in intermediate conformation with 5 spermine molecule at 1.65 A resolution To Be Published 0 0 0 0 8OPZ 37240444 Crystal structure of a tailspike depolymerase (APK16_gp47) from Acinetobacter phage APK16 2023-04-10 2023-05-31 Timoshina, O.Y.,Kasimova, A.A.,Shneider, M.M.,Matyuta, I.O.,Nikolaeva, A.Y.,Evseev, P.V.,Arbatsky, N.P.,Shashkov, A.S.,Chizhov, A.O.,Shelenkov, A.A.,Mikhaylova, Y.V.,Slukin, P.V.,Volozhantsev, N.V.,Boyko, K.M.,Knirel, Y.A.,Miroshnikov, K.A.,Popova, A.V. Friunavirus Phage-Encoded Depolymerases Specific to Different Capsular Types of Acinetobacter baumannii . Int J Mol Sci 2023 24 0 0 8OQ1 37240444 Crystal structure of tailspike depolymerase (APK14_gp49) from Acinetobacter phage vB_AbaP_APK14 2023-04-10 2023-06-07 Timoshina, O.Y.,Kasimova, A.A.,Shneider, M.M.,Matyuta, I.O.,Nikolaeva, A.Y.,Evseev, P.V.,Arbatsky, N.P.,Shashkov, A.S.,Chizhov, A.O.,Shelenkov, A.A.,Mikhaylova, Y.V.,Slukin, P.V.,Volozhantsev, N.V.,Boyko, K.M.,Knirel, Y.A.,Miroshnikov, K.A.,Popova, A.V. Friunavirus Phage-Encoded Depolymerases Specific to Different Capsular Types of Acinetobacter baumannii. Int J Mol Sci 2023 24 0 0 8P3M The structure of thiocyanate dehydrogenase mutant form with Lys 281 replaced by Ala from Thioalkalivibrio paradoxus 2023-05-18 2023-06-07 Varfolomeeva, L.A.,Polyakov, K.M.,Komolov, A.S.,Rakitina, T.V.,Dergousova, N.I.,Dorovatovskii, P.V.,Boyko, K.M.,Tikhonova, T.V.,Popov, V.O. Improvement of the Diffraction Properties of Thiocyanate Dehydrogenase Crystals Crystallography Reports 2023 0 0 0 8IXS 37197451 Methyl and Fluorine Effects in Novel Orally Bioavailable Keap1/Nrf2 PPI Inhibitor for Treatment of Chronic Kidney Disease 2023-04-03 2023-06-14 Otake, K.,Ubukata, M.,Nagahashi, N.,Ogawa, N.,Hantani, Y.,Hantani, R.,Adachi, T.,Nomura, A.,Yamaguchi, K.,Maekawa, M.,Mamada, H.,Motomura, T.,Sato, M.,Harada, K. Methyl and Fluorine Effects in Novel Orally Bioavailable Keap1-Nrf2 PPI Inhibitor. Acs Med.Chem.Lett. 2023 14 658 665 8GN0 37209822 Crystal structure of DCBQ-bound photosystem II complex 2022-08-22 2023-07-05 Kamada, S.,Nakajima, Y.,Shen, J.R. Structural insights into the action mechanisms of artificial electron acceptors in photosystem II. J.Biol.Chem. 2023 299 104839 104839 8GN1 37209822 Crystal structure of DBBQ-bound photosystem II complex 2022-08-22 2023-07-05 Kamada, S.,Nakajima, Y.,Shen, J.R. Structural insights into the action mechanisms of artificial electron acceptors in photosystem II. J.Biol.Chem. 2023 299 104839 104839 8GN2 37209822 Crystal structure of PPBQ-bound photosystem II complex 2022-08-22 2023-07-05 Kamada, S.,Nakajima, Y.,Shen, J.R. Structural insights into the action mechanisms of artificial electron acceptors in photosystem II. J.Biol.Chem. 2023 299 104839 104839 8P5F 37355052 Human wild-type GAPDH,orthorhombic form 2023-05-24 2023-07-05 Medvedeva, M.V.,Kleimenov, S.Y.,Samygina, V.R.,Muronetz, V.I.,Schmalhausen, E.V. S-nitrosylation and S-glutathionylation of GAPDH: Similarities, differences, and relationships. Biochim Biophys Acta Gen Subj 2023 1867 130418 130418 8H9O 37454189 Crystal structure of voltage-gated sodium channel NavAb N49K mutant in sodium ion condition 2022-10-25 2023-07-26 Irie, K.,Oda, Y.,Sumikama, T.,Oshima, A.,Fujiyoshi, Y. The structural basis of divalent cation block in a tetrameric prokaryotic sodium channel. Nat Commun 2023 14 4236 4236 8H9W 37454189 Crystal structure of voltage-gated sodium channel NavAb N49K mutant in calcium ion condition 2022-10-25 2023-07-26 Irie, K.,Oda, Y.,Sumikama, T.,Oshima, A.,Fujiyoshi, Y. The structural basis of divalent cation block in a tetrameric prokaryotic sodium channel. Nat Commun 2023 14 4236 4236 8H9X 37454189 Crystal structure of voltage-gated sodium channel NavAb N49K/L176Q mutant in sodium ion condition 2022-10-25 2023-07-26 Irie, K.,Oda, Y.,Sumikama, T.,Oshima, A.,Fujiyoshi, Y. The structural basis of divalent cation block in a tetrameric prokaryotic sodium channel. Nat Commun 2023 14 4236 4236 8H9Y 37454189 Crystal structure of voltage-gated sodium channel NavAb N49K/L176Q mutant in calcium ion condition 2022-10-25 2023-07-26 Irie, K.,Oda, Y.,Sumikama, T.,Oshima, A.,Fujiyoshi, Y. The structural basis of divalent cation block in a tetrameric prokaryotic sodium channel. Nat Commun 2023 14 4236 4236 8HA1 37454189 Crystal structure of voltage-gated sodium channel NavAb N49K/L176G mutant in sodium ion condition 2022-10-26 2023-07-26 Irie, K.,Oda, Y.,Sumikama, T.,Oshima, A.,Fujiyoshi, Y. The structural basis of divalent cation block in a tetrameric prokaryotic sodium channel. Nat Commun 2023 14 4236 4236 8HA2 37454189 Crystal structure of voltage-gated sodium channel NavAb N49K/L176G mutant in calcium ion condition 2022-10-26 2023-07-26 Irie, K.,Oda, Y.,Sumikama, T.,Oshima, A.,Fujiyoshi, Y. The structural basis of divalent cation block in a tetrameric prokaryotic sodium channel. Nat Commun 2023 14 4236 4236 8JBK 37357620 Crystal structure of Na+,K+-ATPase in the E1.3Na+ state 2023-05-09 2023-08-09 Kanai, R.,Vilsen, B.,Cornelius, F.,Toyoshima, C. Crystal structures of Na + ,K + -ATPase reveal the mechanism that converts the K + -bound form to Na + -bound form and opens and closes the cytoplasmic gate. Febs Lett. 2023 597 1957 1976 8JBL 37357620 Crystal structure of Na+,K+-ATPase in the E1.Mg2+ state 2023-05-09 2023-08-09 Kanai, R.,Vilsen, B.,Cornelius, F.,Toyoshima, C. Crystal structures of Na + ,K + -ATPase reveal the mechanism that converts the K + -bound form to Na + -bound form and opens and closes the cytoplasmic gate. Febs Lett. 2023 597 1957 1976 8JBM 37357620 Crystal structure of Na+,K+-ATPase in the E1.Mn2+ state 2023-05-09 2023-08-09 Kanai, R.,Vilsen, B.,Cornelius, F.,Toyoshima, C. Crystal structures of Na + ,K + -ATPase reveal the mechanism that converts the K + -bound form to Na + -bound form and opens and closes the cytoplasmic gate. Febs Lett. 2023 597 1957 1976 8HQ8 37633266 Bry-LHCII homotrimer of Bryopsis corticulans 2022-12-13 2023-09-06 Li, Z.,Zhou, C.,Zhao, S.,Zhang, J.,Liu, X.,Sang, M.,Qin, X.,Yang, Y.,Han, G.,Kuang, T.,Shen, J.R.,Wang, W. Structural and functional properties of different types of siphonous LHCII trimers from an intertidal green alga Bryopsis corticulans. Structure 2023 31 1247 0 8Q9X The structure of thiocyanate dehydrogenase from Pelomicrobium methylotrophicum with molecular oxygen at 1.05 A resolution 2023-08-22 2023-09-13 Varfolomeeva, L.A.,Polyakov, K.M.,Shipkov, N.S.,Dergousova, N.I.,Boyko, K.M.,Tikhonova, T.V.,Popov, V.O. Structure of thiocyanate dehydrogenase from Pelomicrobium methylotrophicum at atomic resolution To Be Published 0 0 0 0 8Q9Y The structure of thiocyanate dehydrogenase from Pelomicrobium methylotrophicum in complex with inhibitor thiourea at 1.10 A resolution 2023-08-22 2023-09-13 Varfolomeeva, L.A.,Polyakov, K.M.,Shipkov, N.S.,Dergousova, N.I.,Boyko, K.M.,Tikhonova, T.V.,Popov, V.O. Structure of thiocyanate dehydrogenase from Pelomicrobium methylotrophicum at atomic resolution To Be Published 0 0 0 0 7YR9 37689761 Crystal structure of the immature form of TtPetA 2022-08-09 2023-09-20 Tsutsumi, E.,Niwa, S.,Takeda, R.,Sakamoto, N.,Okatsu, K.,Fukai, S.,Ago, H.,Nagao, S.,Sekiguchi, H.,Takeda, K. Structure of a putative immature form of a Rieske-type iron-sulfur protein in complex with zinc chloride. Commun Chem 2023 6 190 190 7YRA 37689761 Crystal structure of [2Fe-2S]-TtPetA 2022-08-09 2023-09-20 Tsutsumi, E.,Niwa, S.,Takeda, R.,Sakamoto, N.,Okatsu, K.,Fukai, S.,Ago, H.,Nagao, S.,Sekiguchi, H.,Takeda, K. Structure of a putative immature form of a Rieske-type iron-sulfur protein in complex with zinc chloride. Commun Chem 2023 6 190 190 8JA8 37603751 Crystal structure of Mycobacterium tuberculosis LpqY with trehalose bound in a closed liganded form 2023-05-05 2023-09-27 Liang, J.,Liu, F.,Xu, P.,Shangguan, W.,Hu, T.,Wang, S.,Yang, X.,Xiong, Z.,Yang, X.,Guddat, L.W.,Yu, B.,Rao, Z.,Zhang, B. Molecular recognition of trehalose and trehalose analogues by Mycobacterium tuberculosis LpqY-SugABC. Proc.Natl.Acad.Sci.USA 2023 120 0 0 8JZ0 37737932 Crystal structure of a single-chain monellin mutant C41A 2023-07-04 2023-10-11 Ohnuma, K.,Yamashita, A.,Yasui, N. Investigating the Effect of Substituting a Single Cysteine Residue on the Thermal Stability of an Engineered Sweet Protein, Single-Chain Monellin. Protein J. 2023 42 698 708 8JZ1 37737932 Crystal structure of a single-chain monellin mutant C41V 2023-07-04 2023-10-11 Ohnuma, K.,Yamashita, A.,Yasui, N. Investigating the Effect of Substituting a Single Cysteine Residue on the Thermal Stability of an Engineered Sweet Protein, Single-Chain Monellin. Protein J. 2023 42 698 708 8I4J 37871160 Structure of wild-type Azami Green from Galaxea fascicularis 2023-01-19 2023-11-01 Imamura, H.,Otsubo, S.,Nishida, M.,Takekawa, N.,Imada, K. Red fluorescent proteins engineered from green fluorescent proteins. Proc.Natl.Acad.Sci.USA 2023 120 0 0 8I4K 37871160 Structure of Azami Red1.0, a red fluorescent protein engineered from Azami Green 2023-01-19 2023-11-01 Imamura, H.,Otsubo, S.,Nishida, M.,Takekawa, N.,Imada, K. Red fluorescent proteins engineered from green fluorescent proteins. Proc.Natl.Acad.Sci.USA 2023 120 0 0 8JH0 37890784 Crystal structure of the light-driven sodium pump IaNaR 2023-05-22 2023-11-01 Sato, Y.,Hashimoto, T.,Kato, K.,Okamura, A.,Hasegawa, K.,Shinone, T.,Tanaka, Y.,Tanaka, Y.,Tsukazaki, T.,Tsukamoto, T.,Demura, M.,Yao, M.,Kikukawa, T. Multistep conformational changes leading to the gate opening of light-driven sodium pump rhodopsin. J.Biol.Chem. 2023 299 105393 105393 8IN4 37910430 Eisenia hydrolysis-enhancing protein from Aplysia kurodai 2023-03-08 2023-11-15 Sun, X.,Ye, Y.,Sakurai, N.,Wang, H.,Kato, K.,Yu, J.,Yuasa, K.,Tsuji, A.,Yao, M. Structural basis of EHEP-mediated offense against phlorotannin-induced defense from brown algae to protect aku BGL activity. Elife 2023 12 0 0 8JWD 37877621 Histidine kinase QseE sensor domain of Escherichia coli O157:H7 2023-06-28 2023-11-15 Matsumoto, K.,Fukuda, Y.,Inoue, T. Crystal structures of QseE and QseG: elements of a three-component system from Escherichia coli. Acta Crystallogr.,Sect.F 2023 79 285 293 8WFF The Crystal Structure of LYN from Biortus. 2023-09-19 2023-11-22 Wang, F.,Cheng, W.,Yuan, Z.,Qi, J.,Lu, Y. The Crystal Structure of LYN from Biortus. To Be Published 0 0 0 0 8K5R 37967851 CDK9/cyclin T1 in complex with KB-0742 2023-07-24 2023-12-06 Freeman, D.B.,Hopkins, T.D.,Mikochik, P.J.,Vacca, J.P.,Gao, H.,Naylor-Olsen, A.,Rudra, S.,Li, H.,Pop, M.S.,Villagomez, R.A.,Lee, C.,Li, H.,Zhou, M.,Saffran, D.C.,Rioux, N.,Hood, T.R.,Day, M.A.L.,McKeown, M.R.,Lin, C.Y.,Bischofberger, N.,Trotter, B.W. Discovery of KB-0742, a Potent, Selective, Orally Bioavailable Small Molecule Inhibitor of CDK9 for MYC-Dependent Cancers. J.Med.Chem. 2023 66 15629 15647 8HNF Crystal structure of the ancestral GH19 chitinase Anc5 2022-12-07 2023-12-13 Kozome, D.,Laurino, P. Emergence of antifungal activity in GH19 chitinases through gain-of-function in a remote loop. To Be Published 0 0 0 0 8UH5 Crystal structure of SARS-CoV-2 main protease in complex with an inhibitor TKB-272 2023-10-06 2023-12-13 Higashi-Kuwata, N.,Bulut, H.,Hayashi, H.,Tsuji, K.,Ogata-Aoki, H.,Kiso, M.,Takamune, N.,Kishimoto, N.,Hattori, S.,Ishii, T.,Kobayakawa, T.,Nakano, K.,Das, D.,Saruwatari, J.,Hasegawa, K.,Murayama, K.,Sukenaga, Y.,Takamatsu, Y.,Yoshimura, K.,Aoki, M.,Okamura, T.,Yamayoshi, S.,Kawaoka, Y.,Misumi, S.,Tamamura, H.,Mitsuya, H. TKB272, an Orally Available SARS-CoV-2-Mpro Inhibitor Containing 5-Fluorobenzothiazole, Potently Blocks SARS-CoV-2 Replication without Ritonavir To Be Published 0 0 0 0 8UH9 Crystal structure of SARS-CoV-2 main protease E166V mutant in complex with an inhibitor TKB-272 2023-10-07 2023-12-20 Higashi-Kuwata, N.,Bulut, H.,Hayashi, H.,Tsuji, K.,Ogata-Aoki, H.,Kiso, M.,Takamune, N.,Kishimoto, N.,Hattori, S.,Ishii, T.,Kobayakawa, T.,Nakano, K.,Das, D.,Saruwatari, J.,Hasegawa, K.,Murayama, K.,Sukenaga, Y.,Takamatsu, Y.,Yoshimura, K.,Aoki, M.,Okamura, T.,Yamayoshi, S.,Kawaoka, Y.,Misumi, S.,Tamamura, H.,Mitsuya, H. TKB272, an Orally Available SARS-CoV-2-Mpro Inhibitor Containing 5-Fluorobenzothiazole, Potently Blocks SARS-CoV-2 Replication without Ritonavir To Be Published 0 0 0 0 8UH8 Crystal structure of SARS-CoV-2 main protease E166V (Apo structure) 2023-10-07 2024-01-24 Higashi-Kuwata, N.,Bulut, H.,Hayashi, H.,Tsuji, K.,Ogata-Aoki, H.,Kiso, M.,Takamune, N.,Kishimoto, N.,Hattori, S.,Ishii, T.,Kobayakawa, T.,Nakano, K.,Das, D.,Saruwatari, J.,Hasegawa, K.,Murayama, K.,Sukenaga, Y.,Takamatsu, Y.,Yoshimura, K.,Aoki, M.,Okamura, T.,Yamayoshi, S.,Kawaoka, Y.,Misumi, S.,Tamamura, H.,Mitsuya, H. TKB272, an Orally Available SARS-CoV-2-Mpro Inhibitor Containing 5-Fluorobenzothiazole, Potently Blocks SARS-CoV-2 Replication without Ritonavir To Be Published 0 0 0 0 8K9N 38232298 Subatomic resolution structure of Pseudoazurin from Alcaligenes faecalis 2023-08-01 2024-02-14 Fukuda, Y.,Lintuluoto, M.,Kurihara, K.,Hasegawa, K.,Inoue, T.,Tamada, T. Overlooked Hydrogen Bond in a Blue Copper Protein Uncovered by Neutron and Sub- angstrom ngstrom Resolution X-ray Crystallography. Biochemistry 2024 63 339 347 8JBY 37414577 Vascular endothelial protein tyrosine phosphatase in complex with Cpd-2 2023-05-10 2024-02-28 Asano, W.,Yamanaka, K.,Ohara, Y.,Uhara, T.,Doi, S.,Orita, T.,Iwanaga, T.,Adachi, T.,Fujioka, S.,Akaki, T.,Ikegashira, K.,Hantani, Y. Fragment-Based Discovery of Novel VE-PTP Inhibitors Using Orthogonal Biophysical Techniques. Biochemistry 2023 62 2161 2169 8P6G 37650870 Crystal structure of the improved version of the Genetically Encoded Green Calcium Indicator YTnC2-5 2023-05-26 2024-04-03 Subach, O.M.,Vlaskina, A.V.,Agapova, Y.K.,Nikolaeva, A.Y.,Varizhuk, A.M.,Podgorny, O.V.,Piatkevich, K.D.,Patrushev, M.V.,Boyko, K.M.,Subach, F.V. YTnC2, an improved genetically encoded green calcium indicator based on toadfish troponin C. Febs Open Bio 2023 13 2047 2060 8JL8 Crystal structure of the collagen binding domain of Cnm from Streptococcus mutans 2023-06-02 2024-04-10 Nishi, A.,Matsui, H.,Hirata, A.,Mukaiyama, A.,Tanaka, S.-i.,Yoshizawa, T.,Matsumura, H.,Nomura, R.,Nakano, K.,Takano, K. Structure, Stability and Binding Properties of Collagen-Binding Domains from Streptococcus mutans. Chemistry 2023 5 1911 1920 8I0J JB13GH39P28 mutant-D41G 2023-01-11 2024-04-24 Cao, L.J.,Lin, M.Y.,Zhang, R.,Huang, Z.X.,Zhou, J.P. beta-Xylosidase JB13GH39P28 (D41G) showing salt/ethanol/trypsin tolerance and transformation of notoginsenosides To Be Published 0 0 0 0 8YTR The structure of Cu(II)-CopC from Thioalkalivibrio paradoxus 2024-03-26 2024-04-24 Kulikova, O.G.,Solovieva, A.Y.,Varfolomeeva, L.A.,Dergousova, N.I.,Nikolaeva, A.Y.,Boyko, K.M.,Tikhonova, T.V.,Popov, V.O. The structure of Cu(II)-CopC from Thioalkalivibrio paradoxus To Be Published 0 0 0 0 8YTS The structure of the cytochrome c546/556 from Thioalkalivibrio paradoxus with unusual UV-Vis spectral features at atomic resolution 2024-03-26 2024-04-24 Varfolomeeva, L.A.,Solovieva, A.Y.,Dergousova, N.I.,Boyko, K.M.,Tikhonova, T.V.,Popov, V.O. The structure of the cytochrome c546/556 from Thioalkalivibrio paradoxus with unusual UV-Vis spectral features at atomic resolution To Be Published 0 0 0 0 9AVQ Crystal structure of SARS-CoV-2 main protease A191T mutant in complex with an inhibitor Nirmatrelvir 2024-03-04 2024-04-24 Hattori, S.,Bulut, H.,Hayashi, H.,Kishimoto, N.,Takamune, N.,Hasegawa, K.,Murayama, K.,Mi, L.,Wlodawer, A.,Tamamura, H.,Misumi, S.,Mitsuya, H. Structural and virologic mechanism of emergence of main protease inhibitor-resistance in SARS-CoV-2 as selected with main protease inhibitors To Be Published 0 0 0 0