1WUL
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![BU of 1wul by Molmil](/molmil-images/mine/1wul) | High Resolution Structure Of The Reduced State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F | Descriptor: | (4R)-2-METHYLPENTANE-2,4-DIOL, (4S)-2-METHYL-2,4-PENTANEDIOL, FE3-S4 CLUSTER, ... | Authors: | Ogata, H, Hirota, S, Nakahara, A, Komori, H, Shibata, N, Kato, T, Kano, K, Higuchi, Y. | Deposit date: | 2004-12-07 | Release date: | 2005-12-07 | Last modified: | 2019-09-04 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Activation process of [NiFe] hydrogenase elucidated by high-resolution X-Ray analyses: conversion of the ready to the unready state Structure, 13, 2005
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1WUI
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![BU of 1wui by Molmil](/molmil-images/mine/1wui) | Ultra-High resolution Structure Of The Ni-A State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F | Descriptor: | (4R)-2-METHYLPENTANE-2,4-DIOL, (4S)-2-METHYL-2,4-PENTANEDIOL, FE3-S4 CLUSTER, ... | Authors: | Ogata, H, Hirota, S, Nakahara, A, Komori, H, Shibata, N, Kato, T, Kano, K, Higuchi, Y. | Deposit date: | 2004-12-07 | Release date: | 2005-12-07 | Last modified: | 2019-09-04 | Method: | X-RAY DIFFRACTION (1.04 Å) | Cite: | Activation process of [NiFe] hydrogenase elucidated by high-resolution X-Ray analyses: conversion of the ready to the unready state Structure, 13, 2005
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2CVC
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![BU of 2cvc by Molmil](/molmil-images/mine/2cvc) | Crystal structure of High-Molecular Weight Cytochrome c from Desulfovibrio vulgaris (Hildenborough) | Descriptor: | HEME C, High-molecular-weight cytochrome c precursor | Authors: | Suto, K, Sato, M, Shibata, N, Kitamura, M, Morimoto, Y, Takayama, Y, Ozawa, K, Akutsu, H, Higuchi, Y, Yasuoka, N. | Deposit date: | 2005-06-02 | Release date: | 2006-06-06 | Last modified: | 2019-10-02 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structure of High-Molecular Weight Cytochrome c To be Published
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3VQT
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![BU of 3vqt by Molmil](/molmil-images/mine/3vqt) | Crystal structure analysis of the translation factor RF3 | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, Peptide chain release factor 3 | Authors: | Kihira, K, Shomura, Y, Shibata, N, Kitamura, M, Higuchi, Y. | Deposit date: | 2012-03-30 | Release date: | 2012-09-05 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Crystal structure analysis of the translation factor RF3 (release factor 3) Febs Lett., 586, 2012
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3VWN
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![BU of 3vwn by Molmil](/molmil-images/mine/3vwn) | Crystal structure of 6-aminohexanoate-dimer hydrolase G181D/R187G/H266N/D370Y mutant | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 6-aminohexanoate-dimer hydrolase, GLYCEROL, ... | Authors: | Kawashima, Y, Shibata, N, Negoro, S, Higuchi, Y. | Deposit date: | 2012-08-30 | Release date: | 2013-10-16 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.2 Å) | Cite: | Structural, kinetic and theoretical analyses of hydrolase mutants altering in the directionality and equilibrium point of reversible amide-synthetic/hydrolytic reaction To be Published
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5Y3C
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![BU of 5y3c by Molmil](/molmil-images/mine/5y3c) | |
5Y3B
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![BU of 5y3b by Molmil](/molmil-images/mine/5y3b) | |
6IW3
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![BU of 6iw3 by Molmil](/molmil-images/mine/6iw3) | |
6K7C
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![BU of 6k7c by Molmil](/molmil-images/mine/6k7c) | Dimeric Shewanella violacea cytochrome c5 | Descriptor: | HEME C, NITRATE ION, Soluble cytochrome cA | Authors: | Yang, H, Yamanaka, M, Nagao, S, Yasuhara, K, Shibata, N, Higuchi, Y, Hirota, S. | Deposit date: | 2019-06-07 | Release date: | 2019-09-04 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.15 Å) | Cite: | Protein surface charge effect on 3D domain swapping in cells for c-type cytochromes. Biochim Biophys Acta Proteins Proteom, 1867, 2019
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6JCK
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![BU of 6jck by Molmil](/molmil-images/mine/6jck) | Complex structure of Axin-DIX and Dvl2-DIX | Descriptor: | Axin-1, Segment polarity protein dishevelled homolog DVL-2 | Authors: | Yamanishi, K, Shibata, N. | Deposit date: | 2019-01-29 | Release date: | 2020-01-15 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (3.09 Å) | Cite: | A direct heterotypic interaction between the DIX domains of Dishevelled and Axin mediates signaling to beta-catenin. Sci.Signal., 12, 2019
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3VWQ
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![BU of 3vwq by Molmil](/molmil-images/mine/3vwq) | 6-aminohexanoate-dimer hydrolase S112A/G181D/R187A/H266N/D370Y mutant complexd with 6-aminohexanoate | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 6-AMINOHEXANOIC ACID, 6-aminohexanoate-dimer hydrolase, ... | Authors: | Kawashima, Y, Shibata, N, Negoro, S, Higuchi, Y. | Deposit date: | 2012-08-30 | Release date: | 2013-10-16 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structural, kinetic and theoretical analyses of hydrolase mutants altering in the directionality and equilibrium point of reversible amide-synthetic/hydrolytic reaction to be published
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2D5M
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2D4R
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![BU of 2d4r by Molmil](/molmil-images/mine/2d4r) | Crystal structure of TTHA0849 from Thermus thermophilus HB8 | Descriptor: | SULFATE ION, hypothetical protein TTHA0849 | Authors: | Nakabayashi, M, Shibata, N, Kuramitsu, S, Higuchi, Y, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-10-23 | Release date: | 2005-12-13 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Structure of a conserved hypothetical protein, TTHA0849 from Thermus thermophilus HB8, at 2.4 A resolution: a putative member of the StAR-related lipid-transfer (START) domain superfamily. Acta Crystallogr.,Sect.F, 61, 2005
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3VR1
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![BU of 3vr1 by Molmil](/molmil-images/mine/3vr1) | Crystal structure analysis of the translation factor RF3 | Descriptor: | GUANOSINE-5',3'-TETRAPHOSPHATE, Peptide chain release factor 3 | Authors: | Kihira, K, Shomura, Y, Shibata, N, Kitamura, M, Higuchi, Y. | Deposit date: | 2012-04-03 | Release date: | 2012-09-05 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Crystal structure analysis of the translation factor RF3 (release factor 3) Febs Lett., 586, 2012
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3VWP
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![BU of 3vwp by Molmil](/molmil-images/mine/3vwp) | Crystal structure of 6-aminohexanoate-dimer hydrolase S112A/G181D/R187S/H266N/D370Y mutant complexd with 6-aminohexanoate | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 6-AMINOHEXANOIC ACID, 6-aminohexanoate-dimer hydrolase, ... | Authors: | Kawashima, Y, Shibata, N, Negoro, S, Higuchi, Y. | Deposit date: | 2012-08-30 | Release date: | 2013-10-16 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (1.55 Å) | Cite: | Structural, kinetic and theoretical analyses of hydrolase mutants altering in the directionality and equilibrium point of reversible amide-synthetic/hydrolytic reaction to be published
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2DCF
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![BU of 2dcf by Molmil](/molmil-images/mine/2dcf) | Crystal structure of 6-aminohexanoate-dimer hydrolase S112A/G181D/H266N mutant with substrate | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 6-AMINOHEXANOIC ACID, 6-aminohexanoate-dimer hydrolase, ... | Authors: | Ohki, T, Shibata, N, Higuchi, Y, Takeo, M, Negoro, S. | Deposit date: | 2006-01-06 | Release date: | 2007-01-09 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (1.4 Å) | Cite: | Nylon-oligomer degrading enzyme/substrate complex: catalytic mechanism of 6-aminohexanoate-dimer hydrolase J.Mol.Biol., 370, 2007
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3W9R
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![BU of 3w9r by Molmil](/molmil-images/mine/3w9r) | Crystal structure of the high-affinity abscisic acid receptor PYL9/RCAR9 bound to ABA | Descriptor: | (2Z,4E)-5-[(1S)-1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl]-3-methylpenta-2,4-dienoic acid, Abscisic acid receptor PYL9, HEXAETHYLENE GLYCOL | Authors: | Nakagawa, M, Hirano, Y, Kagiyama, M, Shibata, N, Hakoshima, T. | Deposit date: | 2013-04-13 | Release date: | 2014-04-09 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Mechanism of high-affinity abscisic acid binding to PYL9/RCAR1. Genes Cells, 19, 2014
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5XYO
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![BU of 5xyo by Molmil](/molmil-images/mine/5xyo) | Structure of 6-aminohexanoate-oligomer hydrolase from Arthrobacter sp. KI72., D122G mutant | Descriptor: | CHLORIDE ION, Endo-type 6-aminohexanoate oligomer hydrolase, GLYCEROL, ... | Authors: | Negoro, S, Shibata, N, Nagai, K, Higuchi, Y. | Deposit date: | 2017-07-10 | Release date: | 2018-11-21 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural basis of the correct subunit assembly, aggregation, and intracellular degradation of nylon hydrolase Sci Rep, 8, 2018
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5XYP
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![BU of 5xyp by Molmil](/molmil-images/mine/5xyp) | Structure of 6-aminohexanoate-oligomer hydrolase from Arthrobacter sp. KI72., D122R mutant | Descriptor: | Endo-type 6-aminohexanoate oligomer hydrolase, GLYCEROL, PHOSPHATE ION | Authors: | Negoro, S, Shibata, N, Nagai, K, Higuchi, Y. | Deposit date: | 2017-07-10 | Release date: | 2018-11-21 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.2 Å) | Cite: | Structural basis of the correct subunit assembly, aggregation, and intracellular degradation of nylon hydrolase Sci Rep, 8, 2018
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5XYT
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![BU of 5xyt by Molmil](/molmil-images/mine/5xyt) | Structure of 6-aminohexanoate-oligomer hydrolase from Arthrobacter sp. KI72., H130Y mutant | Descriptor: | Endo-type 6-aminohexanoate oligomer hydrolase, GLYCEROL, SULFATE ION | Authors: | Negoro, S, Shibata, N, Nagai, K, Higuchi, Y. | Deposit date: | 2017-07-10 | Release date: | 2018-11-21 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Structural basis of the correct subunit assembly, aggregation, and intracellular degradation of nylon hydrolase Sci Rep, 8, 2018
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5XYG
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![BU of 5xyg by Molmil](/molmil-images/mine/5xyg) | Structure of 6-aminohexanoate-oligomer hydrolase from Arthrobacter sp. KI72. | Descriptor: | CHLORIDE ION, Endotype 6-aminohexanoat-oligomer hydrolase, GLYCEROL, ... | Authors: | Negoro, S, Shibata, N, Nagai, K, Higuchi, Y. | Deposit date: | 2017-07-07 | Release date: | 2018-11-21 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Structural basis of the correct subunit assembly, aggregation, and intracellular degradation of nylon hydrolase Sci Rep, 8, 2018
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5XYS
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![BU of 5xys by Molmil](/molmil-images/mine/5xys) | Structure of 6-aminohexanoate-oligomer hydrolase from Arthrobacter sp. KI72., D122V mutant | Descriptor: | Endo-type 6-aminohexanoate oligomer hydrolase, GLYCEROL, PHOSPHATE ION | Authors: | Negoro, S, Shibata, N, Nagai, K, Higuchi, Y. | Deposit date: | 2017-07-10 | Release date: | 2018-11-21 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.05 Å) | Cite: | Structural basis of the correct subunit assembly, aggregation, and intracellular degradation of nylon hydrolase Sci Rep, 8, 2018
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5Y0L
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![BU of 5y0l by Molmil](/molmil-images/mine/5y0l) | Structure of 6-aminohexanoate-oligomer hydrolase from Arthrobacter sp. KI72., D122G/H130Y mutant | Descriptor: | Endo-type 6-aminohexanoate oligomer hydrolase, GLYCEROL, SODIUM ION, ... | Authors: | Negoro, S, Shibata, N, Nagai, K, Higuchi, Y. | Deposit date: | 2017-07-18 | Release date: | 2018-07-25 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.385 Å) | Cite: | Structural basis of the correct subunit assembly, aggregation, and intracellular degradation of nylon hydrolase Sci Rep, 8, 2018
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5Y0M
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![BU of 5y0m by Molmil](/molmil-images/mine/5y0m) | Structure of 6-aminohexanoate-oligomer hydrolase from Arthrobacter sp. KI72., D36A/D122G/H130Y/E263Q mutant | Descriptor: | CHLORIDE ION, Endo-type 6-aminohexanoate oligomer hydrolase, GLYCEROL, ... | Authors: | Negoro, S, Shibata, N, Nagai, K, Higuchi, Y. | Deposit date: | 2017-07-18 | Release date: | 2018-07-25 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (1.03 Å) | Cite: | Structural basis of the correct subunit assembly, aggregation, and intracellular degradation of nylon hydrolase Sci Rep, 8, 2018
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5XYQ
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![BU of 5xyq by Molmil](/molmil-images/mine/5xyq) | Structure of 6-aminohexanoate-oligomer hydrolase from Arthrobacter sp. KI72., D122K mutant | Descriptor: | Endo-type 6-aminohexanoate oligomer hydrolase, GLYCEROL, PHOSPHATE ION | Authors: | Negoro, S, Shibata, N, Nagai, K, Higuchi, Y. | Deposit date: | 2017-07-10 | Release date: | 2018-11-21 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.1 Å) | Cite: | Structural basis of the correct subunit assembly, aggregation, and intracellular degradation of nylon hydrolase Sci Rep, 8, 2018
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