1IQX
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![BU of 1iqx by Molmil](/molmil-images/mine/1iqx) | 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: | 2024-04-03 | 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
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1IQY
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![BU of 1iqy by Molmil](/molmil-images/mine/1iqy) | 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: | 2024-04-03 | 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
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3VM9
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![BU of 3vm9 by Molmil](/molmil-images/mine/3vm9) | Dimeric horse myoglobin | Descriptor: | Myoglobin, OXYGEN ATOM, PROTOPORPHYRIN IX CONTAINING FE | Authors: | Nagao, S, Osuka, H, Yamada, T, Uni, T, Shomura, Y, Imai, K, Higuchi, Y, Hirota, S. | Deposit date: | 2011-12-09 | Release date: | 2012-09-12 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.05 Å) | Cite: | Structural and oxygen binding properties of dimeric horse myoglobin Dalton Trans, 41, 2012
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3VYM
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![BU of 3vym by Molmil](/molmil-images/mine/3vym) | Dimeric Hydrogenobacter thermophilus cytochrome c552 | Descriptor: | Cytochrome c-552, HEME C | Authors: | Hayashi, Y, Nagao, S, Osuka, H, Komori, H, Higuchi, Y, Hirota, S. | Deposit date: | 2012-09-28 | Release date: | 2012-11-07 | Last modified: | 2017-11-22 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Domain Swapping of the Heme and N-Terminal alpha-Helix in Hydrogenobacter thermophilus Cytochrome c(552) Dimer Biochemistry, 51, 2012
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8KAD
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![BU of 8kad by Molmil](/molmil-images/mine/8kad) | 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
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1IU7
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![BU of 1iu7 by Molmil](/molmil-images/mine/1iu7) | 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
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1WMP
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![BU of 1wmp by Molmil](/molmil-images/mine/1wmp) | Crystal structure of amine oxidase complexed with cobalt ion | Descriptor: | COBALT (II) ION, Phenylethylamine oxidase | Authors: | Okajima, T, Kishishita, S, Chiu, Y.C, Murakawa, T, Kim, M, Yamaguchi, H, Hirota, S, Kuroda, S, Tanizawa, K. | Deposit date: | 2004-07-13 | Release date: | 2005-08-02 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Reinvestigation of metal ion specificity for quinone cofactor biogenesis in bacterial copper amine oxidase Biochemistry, 44, 2005
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5GYR
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![BU of 5gyr by Molmil](/molmil-images/mine/5gyr) | 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
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4ZID
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![BU of 4zid by Molmil](/molmil-images/mine/4zid) | 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
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3NBT
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![BU of 3nbt by Molmil](/molmil-images/mine/3nbt) | 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
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3NBS
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![BU of 3nbs by Molmil](/molmil-images/mine/3nbs) | 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
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5Z25
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![BU of 5z25 by Molmil](/molmil-images/mine/5z25) | 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
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5AWI
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![BU of 5awi by Molmil](/molmil-images/mine/5awi) | 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
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5AUR
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![BU of 5aur by Molmil](/molmil-images/mine/5aur) | 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
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5AUS
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![BU of 5aus by Molmil](/molmil-images/mine/5aus) | 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
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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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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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5XED
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![BU of 5xed by Molmil](/molmil-images/mine/5xed) | 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
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5XEC
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![BU of 5xec by Molmil](/molmil-images/mine/5xec) | 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
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5XVC
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![BU of 5xvc by Molmil](/molmil-images/mine/5xvc) | [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
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5XVB
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![BU of 5xvb by Molmil](/molmil-images/mine/5xvb) | [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
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5XVD
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![BU of 5xvd by Molmil](/molmil-images/mine/5xvd) | [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
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5XFA
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![BU of 5xfa by Molmil](/molmil-images/mine/5xfa) | 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
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5XF9
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![BU of 5xf9 by Molmil](/molmil-images/mine/5xf9) | 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
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