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1IZL
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BU of 1izl by Molmil
Crystal Structure of Photosystem II
Descriptor: 2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL)-AMINO]-2-METHYL-SUCCINIC ACID, BETA-CAROTENE, CHLOROPHYLL A, ...
Authors:Kamiya, N, Shen, J.-R.
Deposit date:2002-10-04
Release date:2003-01-14
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (3.7 Å)
Cite:Crystal structure of oxygen-evolving photosystem II from Thermosynechococcus vulcanus at 3.7-A resolution
Proc.Natl.Acad.Sci.USA, 100, 2003
2EIH
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BU of 2eih by Molmil
Crystal Structure of NAD-dependent alcohol dehydrogenase
Descriptor: Alcohol dehydrogenase, ZINC ION
Authors:Kamiya, N, Hikima, T, Matsu, T, Maoka, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2007-03-13
Release date:2008-03-18
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal structure analysis of putative NAD-dependent alcohol dehydrogenase from Thermus thermophilus HB8
To be published
2EHD
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BU of 2ehd by Molmil
Crystal Structure Analysis of Oxidoreductase
Descriptor: COBALT (II) ION, Oxidoreductase, short-chain dehydrogenase/reductase family
Authors:Kamiya, N, Hikima, T, Ebihara, A, Inoue, Y, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2007-03-06
Release date:2008-03-11
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure analysis of putative oxidoreductase from Thermus thermophilus HB8
to be published
1WVP
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BU of 1wvp by Molmil
Structure of chemically modified myoglobin with distal N-tetrazolyl-histidine E7(64)
Descriptor: Myoglobin, PROTOPORPHYRIN IX CONTAINING FE, SULFATE ION
Authors:Makino, M, Sugimoto, H, Kamiya, N, Shiro, Y, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2004-12-23
Release date:2005-01-18
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.53 Å)
Cite:Heme environmental structure of a novel artificial myoglobin with a closed heme pocket: site-specific chemical modification producing distal N-tetrazolylhistidine E7 by cyanogen bromide and azide ion
J.Am.Chem.Soc., 113, 1991
4TWZ
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BU of 4twz by Molmil
Crystal Structure Analysis of E Coli. RecA Protein
Descriptor: MAGNESIUM ION, Protein RecA
Authors:Hikima, T, Hiraki, T, Furuse, M, Ikawa, S, Iwasaki, W, Shibata, T, Kamiya, N.
Deposit date:2014-07-02
Release date:2015-07-08
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Loop L1 governs the DNA-binding specificity and order for RecA-catalyzed reactions in homologous recombination and DNA repair
Nucleic Acids Res., 43, 2015
1BM1
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BU of 1bm1 by Molmil
CRYSTAL STRUCTURE OF BACTERIORHODOPSIN IN THE LIGHT-ADAPTED STATE
Descriptor: BACTERIORHODOPSIN, PHOSPHORIC ACID 2,3-BIS-(3,7,11,15-TETRAMETHYL-HEXADECYLOXY)-PROPYL ESTER 2-HYDROXO-3-PHOSPHONOOXY-PROPYL ESTER, RETINAL
Authors:Sato, H, Takeda, K, Tani, K, Hino, T, Okada, T, Nakasako, M, Kamiya, N, Kouyama, T.
Deposit date:1998-07-28
Release date:1999-04-27
Last modified:2023-08-02
Method:X-RAY DIFFRACTION (3.5 Å)
Cite:Specific lipid-protein interactions in a novel honeycomb lattice structure of bacteriorhodopsin.
Acta Crystallogr.,Sect.D, 55, 1999
1C0G
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BU of 1c0g by Molmil
CRYSTAL STRUCTURE OF 1:1 COMPLEX BETWEEN GELSOLIN SEGMENT 1 AND A DICTYOSTELIUM/TETRAHYMENA CHIMERA ACTIN (MUTANT 228: Q228K/T229A/A230Y/E360H)
Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, PROTEIN (CHIMERIC ACTIN), ...
Authors:Matsuura, Y, Stewart, M, Kawamoto, M, Kamiya, N, Saeki, K, Yasunaga, T, Wakabayashi, T.
Deposit date:1999-07-16
Release date:2000-03-01
Last modified:2022-12-21
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural basis for the higher Ca(2+)-activation of the regulated actin-activated myosin ATPase observed with Dictyostelium/Tetrahymena actin chimeras.
J.Mol.Biol., 296, 2000
1C0F
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BU of 1c0f by Molmil
CRYSTAL STRUCTURE OF DICTYOSTELIUM CAATP-ACTIN IN COMPLEX WITH GELSOLIN SEGMENT 1
Descriptor: ACTIN, ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, ...
Authors:Matsuura, Y, Stewart, M, Kawamoto, M, Kamiya, N, Saeki, K, Yasunaga, T, Wakabayashi, T.
Deposit date:1999-07-16
Release date:2000-03-01
Last modified:2021-11-03
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis for the higher Ca(2+)-activation of the regulated actin-activated myosin ATPase observed with Dictyostelium/Tetrahymena actin chimeras
J.Mol.Biol., 296, 2000
1DZE
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BU of 1dze by Molmil
Structure of the M Intermediate of Bacteriorhodopsin trapped at 100K
Descriptor: 2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE, 2,3-DI-PHYTANYL-GLYCEROL, 3-PHOSPHORYL-[1,2-DI-PHYTANYL]GLYCEROL, ...
Authors:Takeda, K, Matsui, Y, Sato, H, Hino, T, Kanamori, E, Okumura, H, Yamane, T, Iizuka, T, Kamiya, N, Adachi, S, Kouyama, T.
Deposit date:2000-02-25
Release date:2000-08-16
Last modified:2023-12-06
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal Structure of the M Intermediate of Bacteriorhodopsin: Allosteric Structural Changes Mediated by Sliding Movement of a Transmembrane Helix
J.Mol.Biol., 341, 2004
7CTR
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BU of 7ctr by Molmil
Closed form of PET-degrading cutinase Cut190 with thermostability-improving mutations of S226P/R228S/Q138A/D250C-E296C/Q123H/N202H
Descriptor: 1,4-DIETHYLENE DIOXIDE, Alpha/beta hydrolase family protein
Authors:Emori, M, Numoto, N, Senga, A, Bekker, G.J, Kamiya, N, Ito, N, Kawai, F, Oda, M.
Deposit date:2020-08-20
Release date:2021-02-03
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:Structural basis of mutants of PET-degrading enzyme from Saccharomonospora viridis AHK190 with high activity and thermal stability.
Proteins, 89, 2021
5H2F
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BU of 5h2f by Molmil
Crystal structure of the PsbM-deletion mutant of photosystem II
Descriptor: (3R)-beta,beta-caroten-3-ol, 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL, 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE, ...
Authors:Uto, S, Kawakami, K, Umena, Y, Iwai, M, Ikeuchi, M, Shen, J.R, Kamiya, N.
Deposit date:2016-10-15
Release date:2017-03-22
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Mutual relationships between structural and functional changes in a PsbM-deletion mutant of photosystem II.
Faraday Discuss., 198, 2017
8ISN
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BU of 8isn by Molmil
HLA-A24 in complex with modified 9mer WT1 peptide
Descriptor: Beta-2-microglobulin, CYS-TYR-THR-TRP-ASN-GLN-MET-ASN-LEU, GLYCEROL, ...
Authors:Bekker, G.J, Numoto, N, Kawasaki, M, Hayashi, T, Yabuno, S, Kozono, Y, Shimizu, T, Kozono, H, Ito, N, Oda, M, Kamiya, N.
Deposit date:2023-03-21
Release date:2023-09-13
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.48 Å)
Cite:Elucidation of binding mechanism, affinity, and complex structure between mWT1 tumor-associated antigen peptide and HLA-A*24:02.
Protein Sci., 32, 2023
1DEJ
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BU of 1dej by Molmil
CRYSTAL STRUCTURE OF A DICTYOSTELIUM/TETRAHYMENA CHIMERA ACTIN (MUTANT 646: Q228K/T229A/A230Y/A231K/S232E/E360H) IN COMPLEX WITH HUMAN GELSOLIN SEGMENT 1
Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, CHIMERIC ACTIN, ...
Authors:Matsuura, Y, Stewart, M, Kawamoto, M, Kamiya, N, Saeki, K, Yasunaga, T, Wakabayashi, T.
Deposit date:1999-11-15
Release date:2000-03-01
Last modified:2021-11-03
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis for the higher Ca(2+)-activation of the regulated actin-activated myosin ATPase observed with Dictyostelium/Tetrahymena actin chimeras.
J.Mol.Biol., 296, 2000
1ONL
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BU of 1onl by Molmil
Crystal structure of Thermus thermophilus HB8 H-protein of the glycine cleavage system
Descriptor: glycine cleavage system H protein
Authors:Nakai, T, Ishijima, J, Masui, R, Kuramitsu, S, Kamiya, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-02-28
Release date:2003-08-26
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structure of Thermus thermophilus HB8 H-protein of the glycine-cleavage system, resolved by a six-dimensional molecular-replacement method.
Acta Crystallogr.,Sect.D, 59, 2003
5B5E
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BU of 5b5e by Molmil
Crystal structure analysis of Photosystem II complex
Descriptor: (3R)-beta,beta-caroten-3-ol, 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL, 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE, ...
Authors:Tanaka, A, Fukushima, Y, Kamiya, N.
Deposit date:2016-05-02
Release date:2017-02-01
Last modified:2020-07-29
Method:X-RAY DIFFRACTION (1.87 Å)
Cite:Two Different Structures of the Oxygen-Evolving Complex in the Same Polypeptide Frameworks of Photosystem II
J. Am. Chem. Soc., 139, 2017
5B66
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BU of 5b66 by Molmil
Crystal structure analysis of Photosystem II complex
Descriptor: (3R)-beta,beta-caroten-3-ol, 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL, 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE, ...
Authors:Tanaka, A, Fukushima, Y, Kamiya, N.
Deposit date:2016-05-25
Release date:2017-02-01
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Two Different Structures of the Oxygen-Evolving Complex in the Same Polypeptide Frameworks of Photosystem II
J. Am. Chem. Soc., 139, 2017
5ZNO
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BU of 5zno by Molmil
Crystal structure of PET-degrading cutinase Cut190 S176A/S226P/R228S/ mutant in Ca(2+)-bound state
Descriptor: Alpha/beta hydrolase family protein, CALCIUM ION, GLYCEROL
Authors:Numoto, N, Inaba, S, Yamagami, Y, Kamiya, N, Bekker, G.J, Ishii, K, Uchiyama, S, Kawai, F, Ito, N, Oda, M.
Deposit date:2018-04-10
Release date:2018-09-12
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.60264349 Å)
Cite:Structural Dynamics of the PET-Degrading Cutinase-like Enzyme from Saccharomonospora viridis AHK190 in Substrate-Bound States Elucidates the Ca2+-Driven Catalytic Cycle.
Biochemistry, 57, 2018
5ZRS
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BU of 5zrs by Molmil
Crystal structure of PET-degrading cutinase Cut190 S176A/S226P/R228S mutant in monoethyl adipate bound state
Descriptor: 6-ethoxy-6-oxohexanoic acid, Alpha/beta hydrolase family protein, CALCIUM ION, ...
Authors:Numoto, N, Kamiya, N, Bekker, G.J, Yamagami, Y, Inaba, S, Ishii, K, Uchiyama, S, Kawai, F, Ito, N, Oda, M.
Deposit date:2018-04-25
Release date:2018-09-12
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Structural Dynamics of the PET-Degrading Cutinase-like Enzyme from Saccharomonospora viridis AHK190 in Substrate-Bound States Elucidates the Ca2+-Driven Catalytic Cycle.
Biochemistry, 57, 2018
5ZRR
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BU of 5zrr by Molmil
Crystal structure of PET-degrading cutinase Cut190 S176A/S226P/R228S mutant in monoethyl succinate bound state
Descriptor: 4-ethoxy-4-oxobutanoic acid, Alpha/beta hydrolase family protein, GLYCEROL, ...
Authors:Numoto, N, Kamiya, N, Bekker, G.J, Yamagami, Y, Inaba, S, Ishii, K, Uchiyama, S, Kawai, F, Ito, N, Oda, M.
Deposit date:2018-04-25
Release date:2018-09-12
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.34 Å)
Cite:Structural Dynamics of the PET-Degrading Cutinase-like Enzyme from Saccharomonospora viridis AHK190 in Substrate-Bound States Elucidates the Ca2+-Driven Catalytic Cycle.
Biochemistry, 57, 2018
5ZRQ
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BU of 5zrq by Molmil
Crystal structure of PET-degrading cutinase Cut190 S176A/S226P/R228S mutant in Zn(2+)-bound state
Descriptor: Alpha/beta hydrolase family protein, CALCIUM ION, GLYCEROL, ...
Authors:Numoto, N, Kamiya, N, Bekker, G.J, Yamagami, Y, Inaba, S, Ishii, K, Uchiyama, S, Kawai, F, Ito, N, Oda, M.
Deposit date:2018-04-25
Release date:2018-09-12
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.12 Å)
Cite:Structural Dynamics of the PET-Degrading Cutinase-like Enzyme from Saccharomonospora viridis AHK190 in Substrate-Bound States Elucidates the Ca2+-Driven Catalytic Cycle.
Biochemistry, 57, 2018
7CTS
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BU of 7cts by Molmil
Open form of PET-degrading cutinase Cut190 with thermostability-improving mutations of S226P/R228S/Q138A/D250C-E296C/Q123H/N202H and S176A inactivation
Descriptor: 1,4-DIETHYLENE DIOXIDE, Alpha/beta hydrolase family protein, BICINE, ...
Authors:Emori, M, Numoto, N, Senga, A, Bekker, G.J, Kamiya, N, Ito, N, Kawai, F, Oda, M.
Deposit date:2020-08-20
Release date:2021-02-03
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.1 Å)
Cite:Structural basis of mutants of PET-degrading enzyme from Saccharomonospora viridis AHK190 with high activity and thermal stability.
Proteins, 89, 2021
8IBM
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BU of 8ibm by Molmil
Sulfate bound form of PET-degrading cutinase Cut190 with thermostability-improving mutations of S226P/R228S/Q138A/D250C-E296C/Q123H/N202H and S176A inactivation
Descriptor: Alpha/beta hydrolase family protein, CALCIUM ION, SULFATE ION
Authors:Emori, M, Numoto, N, Kamiya, N, Oda, M.
Deposit date:2023-02-10
Release date:2023-03-15
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Improvement of thermostability and activity of PET-degrading enzyme Cut190 towards a detailed understanding and application of the enzymatic reaction mechanism.
Biorxiv, 2023
8IBL
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BU of 8ibl by Molmil
MES bound form of PET-degrading cutinase Cut190 with thermostability-improving mutations of S226P/R228S/Q138A/D250C-E296C/Q123H/N202H and S176A inactivation
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Alpha/beta hydrolase family protein, CALCIUM ION, ...
Authors:Emori, M, Numoto, N, Kamiya, N, Oda, M.
Deposit date:2023-02-10
Release date:2023-03-15
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Improvement of thermostability and activity of PET-degrading enzyme Cut190 towards a detailed understanding and application of the enzymatic reaction mechanism.
Biorxiv, 2023
7VEB
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BU of 7veb by Molmil
Phycocyanin rod structure of cyanobacterial phycobilisome
Descriptor: C-phycocyanin alpha subunit, C-phycocyanin beta subunit, PHYCOCYANOBILIN, ...
Authors:Kawakami, K, Hamaguchi, T, Hirose, Y, Kosumi, D, Miyata, M, Kamiya, N, Yonekura, K.
Deposit date:2021-09-08
Release date:2022-06-15
Last modified:2022-08-17
Method:ELECTRON MICROSCOPY (4.2 Å)
Cite:Core and rod structures of a thermophilic cyanobacterial light-harvesting phycobilisome.
Nat Commun, 13, 2022
7VEA
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BU of 7vea by Molmil
Pentacylindrical allophycocyanin core from Thermosynechococcus vulcanus
Descriptor: Allophycocyanin alpha chain, Allophycocyanin beta chain, PHYCOCYANOBILIN, ...
Authors:Kawakami, K, Hamaguchi, T, Hirose, Y, Kosumi, D, Miyata, M, Kamiya, N, Yonekura, K.
Deposit date:2021-09-08
Release date:2022-06-22
Last modified:2022-08-17
Method:ELECTRON MICROSCOPY (3.7 Å)
Cite:Core and rod structures of a thermophilic cyanobacterial light-harvesting phycobilisome.
Nat Commun, 13, 2022

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