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3NBS
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BU of 3nbs by Molmil
Crystal structure of dimeric cytochrome c from horse heart
Descriptor: Cytochrome c, DI(HYDROXYETHYL)ETHER, HEME C, ...
Authors:Taketa, M, Komori, H, Hirota, S, Higuchi, Y.
Deposit date:2010-06-04
Release date:2010-07-14
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Cytochrome c polymerization by successive domain swapping at the C-terminal helix
Proc.Natl.Acad.Sci.USA, 107, 2010
3NBT
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BU of 3nbt by Molmil
Crystal structure of trimeric cytochrome c from horse heart
Descriptor: Cytochrome c, DI(HYDROXYETHYL)ETHER, HEME C, ...
Authors:Taketa, M, Komori, H, Hirota, S, Higuchi, Y.
Deposit date:2010-06-04
Release date:2010-07-14
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Cytochrome c polymerization by successive domain swapping at the C-terminal helix
Proc.Natl.Acad.Sci.USA, 107, 2010
8KAD
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BU of 8kad by Molmil
Crystal structure of an antibody light chain tetramer with 3D domain swapping
Descriptor: Antibody light chain
Authors:Sakai, T, Mashima, T, Kobayashi, N, Ogata, H, Uda, T, Hifumi, E, Hirota, S.
Deposit date:2023-08-02
Release date:2023-12-27
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural and thermodynamic insights into antibody light chain tetramer formation through 3D domain swapping.
Nat Commun, 14, 2023
5GYR
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BU of 5gyr by Molmil
Tetrameric Allochromatium vinosum cytochrome c'
Descriptor: Cytochrome c', HEME C
Authors:Yamanaka, M, Hoshizumi, M, Nagao, S, Nakayama, R, Shibata, N, Higuchi, Y, Hirota, S.
Deposit date:2016-09-23
Release date:2017-02-08
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Formation and carbon monoxide-dependent dissociation of Allochromatium vinosum cytochrome c' oligomers using domain-swapped dimers
Protein Sci., 26, 2017
4ZID
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BU of 4zid by Molmil
Dimeric Hydrogenobacter thermophilus cytochrome c552 obtained from Escherichia coli
Descriptor: Cytochrome c-552, HEME C
Authors:Hayashi, Y, Yamanaka, M, Nagao, S, Komori, H, Higuchi, Y, Hirota, S.
Deposit date:2015-04-28
Release date:2016-02-10
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Domain swapping oligomerization of thermostable c-type cytochrome in E. coli cells
Sci Rep, 6, 2016
5AWI
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BU of 5awi by Molmil
Domain-swapped cytochrome cb562 dimer
Descriptor: HEME C, SULFATE ION, Soluble cytochrome b562, ...
Authors:Miyamoto, T, Kuribayashi, M, Nagao, S, Shomura, Y, Higuchi, Y, Hirota, S.
Deposit date:2015-07-03
Release date:2015-10-21
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Domain-swapped cytochrome cb562 dimer and its nanocage encapsulating a Zn-SO4 cluster in the internal cavity
Chem Sci, 2015
5AUR
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BU of 5aur by Molmil
Hydrogenobacter thermophilus cytochrome c552 dimer formed by domain swapping at N-terminal region
Descriptor: Cytochrome c-552, HEME C, IODIDE ION
Authors:Ren, C, Nagao, S, Yamanaka, M, Kamikubo, H, Komori, H, Shomura, Y, Higuchi, Y, Hirota, S.
Deposit date:2015-06-08
Release date:2015-10-21
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.26 Å)
Cite:Oligomerization enhancement and two domain swapping mode detection for thermostable cytochrome c552via the elongation of the major hinge loop.
Mol Biosyst, 11, 2015
5AUS
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BU of 5aus by Molmil
Hydrogenobacter thermophilus cytochrome c552 dimer formed by domain swapping at C-terminal region
Descriptor: Cytochrome c-552, HEME C
Authors:Ren, C, Nagao, S, Yamanaka, M, Komori, H, Shomura, Y, Higuchi, Y, Hirota, S.
Deposit date:2015-06-08
Release date:2015-10-21
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.3 Å)
Cite:Oligomerization enhancement and two domain swapping mode detection for thermostable cytochrome c552via the elongation of the major hinge loop.
Mol Biosyst, 11, 2015
1IU7
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BU of 1iu7 by Molmil
HOLO FORM OF COPPER-CONTAINING AMINE OXIDASE FROM ARTHROBACTER GLOBIFORMIS
Descriptor: AMINE OXIDASE, COPPER (II) ION
Authors:Kishishita, S, Okajima, T, Kim, M, Yamaguchi, H, Hirota, S, Suzuki, S, Kuroda, S, Tanizawa, K, Mure, M.
Deposit date:2002-02-28
Release date:2003-02-04
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Role of Copper Ion in Bacterial Copper Amine Oxidase: Spectroscopic and Crystallographic Studies of Metal-Substituted Enzymes
J.AM.CHEM.SOC., 125, 2003
1IQX
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BU of 1iqx by Molmil
CRYSTAL STRUCTURE OF COBALT-SUBSTITUTED AMINE OXIDASE FROM ARTHROBACTER GLOBIFORMIS
Descriptor: CO(II)-SUBSTITUTED AMINE OXIDASE, COBALT (II) ION
Authors:Kishishita, S, Okajima, T, Mure, M, Kim, M, Yamaguchi, H, Hirota, S, Suzuki, S, Kuroda, S, Tanizawa, K.
Deposit date:2001-08-27
Release date:2003-02-04
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2 Å)
Cite:Role of Copper Ion in Bacterial Copper Amine Oxidase: Spectroscopic and Crystallographic Studies of Metal-Substituted Enzymes
J.AM.CHEM.SOC., 125, 2003
1IQY
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BU of 1iqy by Molmil
CRYSTAL STRUCTURE OF NICKEL-SUBSTITUTED AMINE OXIDASE FROM ARTHROBACTER GLOBIFORMIS
Descriptor: AMINE OXIDASE, NICKEL (II) ION
Authors:Kishishita, S, Okajima, T, Mure, M, Kim, M, Yamaguchi, H, Hirota, S, Kuroda, S, Tanizawa, K.
Deposit date:2001-08-28
Release date:2003-02-04
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Role of Copper Ion in Bacterial Copper Amine Oxidase: Spectroscopic and Crystallographic Studies of Metal-Substituted Enzymes
J.AM.CHEM.SOC., 125, 2003
5XED
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BU of 5xed by Molmil
Heterodimer constructed from M61A PA cyt c551-HT cyt c552 and HT cyt c552-PA cyt c551 chimeric proteins
Descriptor: Cytochrome c-551,Cytochrome c-552, Cytochrome c-552,Cytochrome c-551, HEME C
Authors:Zhang, M, Nakanishi, T, Yamanaka, M, Nagao, S, Yanagisawa, S, Shomura, Y, Shibata, N, Ogura, T, Higuchi, Y, Hirota, S.
Deposit date:2017-04-04
Release date:2017-08-09
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.55 Å)
Cite:Rational Design of Domain-Swapping-Based c-Type Cytochrome Heterodimers by Using Chimeric Proteins.
Chembiochem, 18, 2017
5XEC
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BU of 5xec by Molmil
Heterodimer constructed from PA cyt c551-HT cyt c552 and HT cyt c552-PA cyt c551 chimeric proteins
Descriptor: Cytochrome c-551,Cytochrome c-552, Cytochrome c-552,Cytochrome c-551, HEME C
Authors:Zhang, M, Nakanishi, T, Yamanaka, M, Nagao, S, Yanagisawa, S, Shomura, Y, Shibata, N, Ogura, T, Higuchi, Y, Hirota, S.
Deposit date:2017-04-04
Release date:2017-08-09
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.1 Å)
Cite:Rational Design of Domain-Swapping-Based c-Type Cytochrome Heterodimers by Using Chimeric Proteins.
Chembiochem, 18, 2017
5XVC
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BU of 5xvc by Molmil
[NiFe]-hydrogenase (Hyb-type) from Citrobacter sp. S-77 in a ferricyanide-oxidized condition
Descriptor: DI(HYDROXYETHYL)ETHER, FE3-S4 CLUSTER, FE4-S4-O CLUSTER, ...
Authors:Nishikawa, K, Matsuura, H, Muhd Noor, N.D, Tai, H, Hirota, S, Kim, J, Kang, J, Tateno, M, Yoon, K.S, Ogo, S, Shomura, Y, Higuchi, Y.
Deposit date:2017-06-27
Release date:2018-06-27
Last modified:2019-07-10
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Redox-dependent conformational changes of a proximal [4Fe-4S] cluster in Hyb-type [NiFe]-hydrogenase to protect the active site from O2.
Chem.Commun.(Camb.), 54, 2018
5XVD
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BU of 5xvd by Molmil
[NiFe]-hydrogenase (Hyb-type) from Citrobacter sp. S-77 in an air-oxidized condition
Descriptor: FE3-S4 CLUSTER, FE4-S4-O CLUSTER, GLYCEROL, ...
Authors:Nishikawa, K, Matsuura, H, Muhd Noor, N.D, Tai, H, Hirota, S, Kim, J, Kang, J, Tateno, M, Yoon, K.S, Ogo, S, Shomura, Y, Higuchi, Y.
Deposit date:2017-06-27
Release date:2018-06-27
Last modified:2019-07-10
Method:X-RAY DIFFRACTION (1.57 Å)
Cite:Redox-dependent conformational changes of a proximal [4Fe-4S] cluster in Hyb-type [NiFe]-hydrogenase to protect the active site from O2.
Chem.Commun.(Camb.), 54, 2018
5XVB
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BU of 5xvb by Molmil
[NiFe]-hydrogenase (Hyb-type) from Citrobacter sp. S-77 in an H2-reduced condition
Descriptor: FE3-S4 CLUSTER, GLYCEROL, IRON/SULFUR CLUSTER, ...
Authors:Nishikawa, K, Matsuura, H, Muhd Noor, N.D, Tai, H, Hirota, S, Kim, J, Kang, J, Tateno, M, Yoon, K.S, Ogo, S, Shomura, Y, Higuchi, Y.
Deposit date:2017-06-27
Release date:2018-06-27
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (1.84 Å)
Cite:Redox-dependent conformational changes of a proximal [4Fe-4S] cluster in Hyb-type [NiFe]-hydrogenase to protect the active site from O2.
Chem.Commun.(Camb.), 54, 2018
5XFA
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BU of 5xfa by Molmil
Crystal structure of NAD+-reducing [NiFe]-hydrogenase in the H2-reduced state
Descriptor: CARBONMONOXIDE-(DICYANO) IRON, FE2/S2 (INORGANIC) CLUSTER, IRON/SULFUR CLUSTER, ...
Authors:Shomura, Y, Taketa, M, Nakashima, H, Tai, H, Nakagawa, H, Ikeda, Y, Ishii, M, Igarashi, Y, Nishihara, H, Yoon, K.S, Ogo, S, Hirota, S, Higuchi, Y.
Deposit date:2017-04-09
Release date:2017-08-23
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Structural basis of the redox switches in the NAD(+)-reducing soluble [NiFe]-hydrogenase
Science, 357, 2017
5XF9
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BU of 5xf9 by Molmil
Crystal structure of NAD+-reducing [NiFe]-hydrogenase in the air-oxidized state
Descriptor: CARBONMONOXIDE-(DICYANO) IRON, FE2/S2 (INORGANIC) CLUSTER, FLAVIN MONONUCLEOTIDE, ...
Authors:Shomura, Y, Taketa, M, Nakashima, H, Tai, H, Nakagawa, H, Ikeda, Y, Ishii, M, Igarashi, Y, Nishihara, H, Yoon, K.S, Ogo, S, Hirota, S, Higuchi, Y.
Deposit date:2017-04-09
Release date:2017-08-23
Last modified:2017-09-20
Method:X-RAY DIFFRACTION (2.58 Å)
Cite:Structural basis of the redox switches in the NAD(+)-reducing soluble [NiFe]-hydrogenase
Science, 357, 2017
5Z25
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BU of 5z25 by Molmil
Trimeric Alpha-Helix-Inserted Circular Permutant of Cytochrome c555
Descriptor: Cytochrome c552, HEME C, TETRAETHYLENE GLYCOL
Authors:Oda, A, Nagao, S, Yamanaka, M, Ueda, I, Shibata, N, Higuchi, Y, Hirota, S.
Deposit date:2017-12-28
Release date:2018-03-07
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Construction of a Triangle-Shaped Trimer and a Tetrahedron Using an alpha-Helix-Inserted Circular Permutant of Cytochrome c555.
Chem Asian J, 13, 2018
2Z97
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BU of 2z97 by Molmil
Crystal Structure of Ferric Cytochrome P450cam Reconstituted with 7-Methyl-7-depropionated Hemin
Descriptor: 7-METHYL-7-DEPROPIONATEHEMIN, CAMPHOR, Cytochrome P450-cam, ...
Authors:Hayashi, T, Harada, K, Sakurai, K, Hirota, S, Shimada, H.
Deposit date:2007-09-18
Release date:2008-09-23
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:A role of the heme-7-propionate side chain in cytochrome P450cam as a gate for regulating the access of water molecules to the substrate-binding site
J.Am.Chem.Soc., 131, 2009
7V5P
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BU of 7v5p by Molmil
The dimeric structure of G80A/H81A myoglobin
Descriptor: Myoglobin, OXYGEN ATOM, PROTOPORPHYRIN IX CONTAINING FE
Authors:Xie, C, Nagao, S, Shibata, N, Higuchi, Y, Hirota, S.
Deposit date:2021-08-17
Release date:2022-06-29
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.16 Å)
Cite: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, 11, 2021
6K7C
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BU of 6k7c by Molmil
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
7V5Q
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BU of 7v5q by Molmil
The dimeric structure of G80A/H81A/L137E myoglobin
Descriptor: Myoglobin, PROTOPORPHYRIN IX CONTAINING FE
Authors:Xie, C, Komori, H, Hirota, S.
Deposit date:2021-08-17
Release date:2022-06-29
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.38 Å)
Cite: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, 11, 2021
7V5R
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BU of 7v5r by Molmil
The dimeric structure of G80A/H81A/L137D myoglobin
Descriptor: Myoglobin, PROTOPORPHYRIN IX CONTAINING FE
Authors:Xie, C, Komori, H, Hirota, S.
Deposit date:2021-08-17
Release date:2022-06-29
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.39 Å)
Cite: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, 11, 2021
6L1V
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BU of 6l1v by Molmil
Domain-swapped Alcaligenes xylosoxidans azurin dimer
Descriptor: Azurin-1, COPPER (II) ION
Authors:Cahyono, R.N, Yamanaka, M, Nagao, S, Shibata, N, Higuchi, Y, Hirota, S.
Deposit date:2019-09-30
Release date:2020-02-05
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:3D domain swapping of azurin from Alcaligenes xylosoxidans.
Metallomics, 12, 2020

 

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