2ZJB
 
 | | Crystal structure of the human Dmc1-M200V polymorphic variant | | Descriptor: | Meiotic recombination protein DMC1/LIM15 homolog | | Authors: | Hikiba, J, Hirota, K, Kagawa, W, Ikawa, S, Kinebuchi, T, Sakane, I, Takizawa, Y, Yokoyama, S, Mandon-Pepin, B, Nicolas, A, Shibata, T, Ohta, K, Kurumizaka, H. | | Deposit date: | 2008-03-02 | | Release date: | 2008-08-12 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (3.5 Å) | | Cite: | Structural and functional analyses of the DMC1-M200V polymorphism found in the human population
Nucleic Acids Res., 36, 2008
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6L96
 | | Structure of PPARalpha-LBD/pemafibrate/SRC1 peptide | | Descriptor: | (2~{R})-2-[3-[[1,3-benzoxazol-2-yl-[3-(4-methoxyphenoxy)propyl]amino]methyl]phenoxy]butanoic acid, Peroxisome proliferator-activated receptor alpha, SRC1 coactivator peptide | | Authors: | Kawasaki, M, Kambe, A, Yamamoto, Y, Arulmozhira, S, Ito, S, Nakagawa, Y, Tokiwa, H, Nakano, S, Shimano, H. | | Deposit date: | 2019-11-08 | | Release date: | 2020-01-15 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (3.2 Å) | | Cite: | Elucidation of Molecular Mechanism of a Selective PPAR alpha Modulator, Pemafibrate, through Combinational Approaches of X-ray Crystallography, Thermodynamic Analysis, and First-Principle Calculations.
Int J Mol Sci, 21, 2020
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2DD5
 | | Thiocyanate hydrolase (SCNase) from Thiobacillus thioparus native holo-enzyme | | Descriptor: | COBALT (III) ION, SULFATE ION, Thiocyanate hydrolase alpha subunit, ... | | Authors: | Arakawa, T, Kawano, Y, Kataoka, S, Katayama, Y, Kamiya, N, Yohda, M, Odaka, M. | | Deposit date: | 2006-01-19 | | Release date: | 2007-01-30 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structure of thiocyanate hydrolase: a new nitrile hydratase family protein with a novel five-coordinate cobalt(III) center.
J.Mol.Biol., 366, 2007
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2DD4
 | | Thiocyanate hydrolase (SCNase) from Thiobacillus thioparus recombinant apo-enzyme | | Descriptor: | L(+)-TARTARIC ACID, Thiocyanate hydrolase alpha subunit, Thiocyanate hydrolase beta subunit, ... | | Authors: | Arakawa, T, Kawano, Y, Kataoka, S, Katayama, Y, Kamiya, N, Yohda, M, Odaka, M. | | Deposit date: | 2006-01-19 | | Release date: | 2007-01-30 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.06 Å) | | Cite: | Structure of thiocyanate hydrolase: a new nitrile hydratase family protein with a novel five-coordinate cobalt(III) center.
J.Mol.Biol., 366, 2007
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2DXB
 | | Recombinant thiocyanate hydrolase comprising partially-modified cobalt centers | | Descriptor: | COBALT (III) ION, PHOSPHATE ION, Thiocyanate hydrolase subunit alpha, ... | | Authors: | Arakawa, T, Kawano, Y, Katayama, Y, Yohda, M, Odaka, M. | | Deposit date: | 2006-08-25 | | Release date: | 2007-08-28 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.25 Å) | | Cite: | Structural Basis for Catalytic Activation of Thiocyanate Hydrolase Involving Metal-Ligated Cysteine Modification
J.Am.Chem.Soc., 131, 2009
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2DXC
 | | Recombinant thiocyanate hydrolase, fully-matured form | | Descriptor: | COBALT (III) ION, L(+)-TARTARIC ACID, Thiocyanate hydrolase subunit alpha, ... | | Authors: | Arakawa, T, Kawano, Y, Katayama, Y, Yohda, M, Odaka, M. | | Deposit date: | 2006-08-25 | | Release date: | 2007-08-28 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Structural Basis for Catalytic Activation of Thiocyanate Hydrolase Involving Metal-Ligated Cysteine Modification
J.Am.Chem.Soc., 131, 2009
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1VAI
 | | Structure of e. coli cyclophilin B K163T mutant bound to n-acetyl-ala-ala-pro-ala-7-amino-4-methylcoumarin | | Descriptor: | (ACE)AAPA(MCM), cyclophilin B | | Authors: | Konno, M, Sano, Y, Okudaira, K, Kawaguchi, Y, Yamagishi-Ohmori, Y, Fushinobu, S, Matsuzawa, H. | | Deposit date: | 2004-02-17 | | Release date: | 2004-09-21 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Escherichia coli cyclophilin B binds a highly distorted form of trans-prolyl peptide isomer
Eur.J.Biochem., 271, 2004
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1V9T
 | | Structure of E. coli cyclophilin B K163T mutant bound to succinyl-ALA-PRO-ALA-P-nitroanilide | | Descriptor: | (SIN)APA(NIT), cyclophilin B | | Authors: | Konno, M, Sano, Y, Okudaira, K, Kawaguchi, Y, Yamagishi-Ohmori, Y, Fushinobu, S, Matsuzawa, H. | | Deposit date: | 2004-02-03 | | Release date: | 2004-09-21 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Escherichia coli cyclophilin B binds a highly distorted form of trans-prolyl peptide isomer
Eur.J.Biochem., 271, 2004
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2DOO
 | | The structure of IMP-1 complexed with the detecting reagent (DansylC4SH) by a fluorescent probe | | Descriptor: | BETA-LACTAMASE IMP-1, N-[4-({[5-(DIMETHYLAMINO)-1-NAPHTHYL]SULFONYL}AMINO)BUTYL]-3-SULFANYLPROPANAMIDE, ZINC ION | | Authors: | Kurosaki, H, Yamaguchi, Y, Yasuzawa, H, Jin, W, Yamagata, Y, Arakawa, Y. | | Deposit date: | 2006-05-01 | | Release date: | 2006-11-28 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.43 Å) | | Cite: | Probing, inhibition, and crystallographic characterization of metallo-beta-lactamase (IMP-1) with fluorescent agents containing dansyl and thiol groups
Chemmedchem, 1, 2006
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6AD4
 | | Rat Xanthine oxidoreductase, D428A variant, NADH bound form | | Descriptor: | 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE, BICARBONATE ION, FE2/S2 (INORGANIC) CLUSTER, ... | | Authors: | Okamoto, K, Kawaguchi, Y. | | Deposit date: | 2018-07-30 | | Release date: | 2019-07-31 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Rat Xanthine oxidoreductase, D428A variant, NAD bound form
To Be Published
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6AJU
 | | Rat Xanthine oxidoreductase | | Descriptor: | BICARBONATE ION, FE2/S2 (INORGANIC) CLUSTER, FLAVIN-ADENINE DINUCLEOTIDE, ... | | Authors: | Okamoto, K, Kawaguchi, Y. | | Deposit date: | 2018-08-28 | | Release date: | 2019-09-11 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.94 Å) | | Cite: | Rat Xanthine oxidoreductase, D428A variant, NAD bound form
To Be Published
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1UC2
 | | Hypothetical Extein Protein of PH1602 from Pyrococcus horikoshii | | Descriptor: | SULFATE ION, beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose, hypothetical protein PH1602 | | Authors: | Okada, C, Maegawa, Y, Yao, M, Tanaka, I. | | Deposit date: | 2003-04-08 | | Release date: | 2004-05-04 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.15 Å) | | Cite: | Crystal structure of an RtcB homolog protein (PH1602-extein protein) from Pyrococcus horikoshii reveals a novel fold
Proteins, 63, 2006
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3JRS
 | | Crystal structure of (+)-ABA-bound PYL1 | | Descriptor: | (2Z,4E)-5-[(1S)-1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl]-3-methylpenta-2,4-dienoic acid, Putative uncharacterized protein At5g46790 | | Authors: | Miyazono, K, Miyakawa, T, Sawano, Y, Kubota, K, Tanokura, M. | | Deposit date: | 2009-09-08 | | Release date: | 2009-11-03 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.05 Å) | | Cite: | Structural basis of abscisic acid signalling
Nature, 462, 2009
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1WLT
 | | Crystal Structure of dTDP-4-dehydrorhamnose 3,5-epimerase homologue from Sulfolobus tokodaii | | Descriptor: | 176aa long hypothetical dTDP-4-dehydrorhamnose 3,5-epimerase | | Authors: | Watanabe, N, Sakai, N, Zilian, Z, Kawarabayasi, Y, Tanaka, I. | | Deposit date: | 2004-06-29 | | Release date: | 2005-07-26 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal Structure of dTDP-4-dehydrorhamnose 3,5-epimerase homologue
to be published
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3JRQ
 | | Crystal structure of (+)-ABA-bound PYL1 in complex with ABI1 | | Descriptor: | (2Z,4E)-5-[(1S)-1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl]-3-methylpenta-2,4-dienoic acid, Protein phosphatase 2C 56, Putative uncharacterized protein At5g46790 | | Authors: | Miyazono, K, Miyakawa, T, Sawano, Y, Kubota, K, Tanokura, M. | | Deposit date: | 2009-09-08 | | Release date: | 2009-11-03 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Structural basis of abscisic acid signalling
Nature, 462, 2009
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8H0W
 | | RNA polymerase II transcribing a chromatosome (type II) | | Descriptor: | DNA (261-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Hirano, R, Ehara, H, Tomoya, K, Takizawa, Y, Sekine, S, Kurumizaka, H. | | Deposit date: | 2022-09-30 | | Release date: | 2022-12-07 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (4.6 Å) | | Cite: | Structural basis of RNA polymerase II transcription on the chromatosome containing linker histone H1.
Nat Commun, 13, 2022
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1X25
 | | Crystal Structure of a Member of YjgF Family from Sulfolobus Tokodaii (ST0811) | | Descriptor: | Hypothetical UPF0076 protein ST0811 | | Authors: | Miyakawa, T, Lee, W.C, Hatano, K, Kato, Y, Sawano, Y, Miyazono, K, Nagata, K, Tanokura, M. | | Deposit date: | 2005-04-20 | | Release date: | 2006-02-07 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystal structure of the YjgF/YER057c/UK114 family protein from the hyperthermophilic archaeon Sulfolobus tokodaii strain 7
Proteins, 62, 2006
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2D0Q
 | | Complex of Fe-type NHase with Cyclohexyl isocyanide, photo-activated for 1hr at 277K | | Descriptor: | CYCLOHEXYL ISOCYANIDE, FE (III) ION, MAGNESIUM ION, ... | | Authors: | Nojiri, M, Kawano, Y, Hashimoto, K, Kamiya, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-08-05 | | Release date: | 2006-02-05 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (1.65 Å) | | Cite: | X-ray snap shots of Inhibitor Binding Process in Photo-reactive Nitrile Hydratase
To be Published
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2ZNP
 | | Human PPAR delta ligand binding domain in complex with a synthetic agonist TIPP204 | | Descriptor: | (2S)-2-{4-butoxy-3-[({[2-fluoro-4-(trifluoromethyl)phenyl]carbonyl}amino)methyl]benzyl}butanoic acid, Peroxisome proliferator-activated receptor delta, heptyl beta-D-glucopyranoside | | Authors: | Oyama, T, Hirakawa, Y, Nagasawa, N, Miyachi, H, Morikawa, K. | | Deposit date: | 2008-04-30 | | Release date: | 2009-05-05 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Adaptability and selectivity of human peroxisome proliferator-activated receptor (PPAR) pan agonists revealed from crystal structures
Acta Crystallogr.,Sect.D, 65, 2009
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3NP0
 | | Crystal Structure of Pd(allyl)/apo-E45C/H49A/R52H-rHLFr | | Descriptor: | 1,2-ETHANEDIOL, CADMIUM ION, Ferritin light chain, ... | | Authors: | Wang, Z, Ueno, T, Abe, S, Takezawa, Y, Aoyagi, H, Hikage, T, Watanabe, Y, Kitagawa, S. | | Deposit date: | 2010-06-27 | | Release date: | 2010-12-22 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.48 Å) | | Cite: | Definite coordination arrangement of organometallic palladium complexes accumulated on the designed interior surface of apo-ferritin.
Chem.Commun.(Camb.), 47, 2011
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3NP2
 | | Crystal Structure of Pd(allyl)/apo-E45C/C48A-rHLFr | | Descriptor: | 1,2-ETHANEDIOL, CADMIUM ION, Ferritin light chain, ... | | Authors: | Wang, Z, Ueno, T, Abe, S, Takezawa, Y, Aoyagi, H, Hikage, T, Watanabe, Y, Kitagawa, S. | | Deposit date: | 2010-06-27 | | Release date: | 2010-12-22 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.86 Å) | | Cite: | Definite coordination arrangement of organometallic palladium complexes accumulated on the designed interior surface of apo-ferritin.
Chem.Commun.(Camb.), 47, 2011
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5AON
 | | Crystal structure of the conserved N-terminal domain of Pex14 from Trypanosoma brucei | | Descriptor: | PEROXIN 14, SULFATE ION | | Authors: | Obita, T, Sugawara, Y, Mizuguchi, M, Watanabe, Y, Kawaguchi, K, Imanaka, T. | | Deposit date: | 2015-09-11 | | Release date: | 2015-12-23 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (1.646 Å) | | Cite: | Characterization of the Interaction between Trypanosoma Brucei Pex5P and its Receptor Pex14P.
FEBS Lett., 590, 2016
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3NOZ
 | | Crystal Structure of Pd(allyl)/apo-E45C/R52H-rHLFr | | Descriptor: | 1,2-ETHANEDIOL, CADMIUM ION, Ferritin light chain, ... | | Authors: | Wang, Z, Ueno, T, Abe, S, Takezawa, Y, Aoyagi, H, Hikage, T, Watanabe, Y, Kitagawa, S. | | Deposit date: | 2010-06-27 | | Release date: | 2010-12-22 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.52 Å) | | Cite: | Definite coordination arrangement of organometallic palladium complexes accumulated on the designed interior surface of apo-ferritin.
Chem.Commun.(Camb.), 47, 2011
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8FAZ
 | | Cryo-EM structure of the human BCDX2 complex | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, DNA repair protein RAD51 homolog 2, DNA repair protein RAD51 homolog 3, ... | | Authors: | Jia, L, Wasmuth, E.V, Ruben, E.A, Sung, P, Rawal, Y, Greene, E.C, Meir, A, Olsen, S.K. | | Deposit date: | 2022-11-29 | | Release date: | 2023-06-21 | | Last modified: | 2024-06-19 | | Method: | ELECTRON MICROSCOPY (2.3 Å) | | Cite: | Structural insights into BCDX2 complex function in homologous recombination.
Nature, 619, 2023
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3X40
 | | Copper amine oxidase from Arthrobacter globiformis: Product Schiff-base form produced by anaerobic reduction in the presence of sodium chloride | | Descriptor: | CHLORIDE ION, COPPER (II) ION, GLYCEROL, ... | | Authors: | Okajima, T, Nakanishi, S, Murakawa, T, Kataoka, M, Hayashi, H, Hamaguchi, A, Nakai, T, Kawano, Y, Yamaguchi, H, Tanizawa, K. | | Deposit date: | 2015-03-10 | | Release date: | 2015-08-19 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Probing the Catalytic Mechanism of Copper Amine Oxidase from Arthrobacter globiformis with Halide Ions.
J.Biol.Chem., 290, 2015
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