9kum

Bovine Heart Cytochrome c Oxidase in the Xenon-bound Fully Reduced State

Method: X-RAY DIFFRACTION

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1. Protein Identity and Related Structures Protein Identity & Related Structures

Cytochrome c oxidase subunit 1

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COX1_BOVIN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–514； UniProt 1–514 Author chain N； PDBConstruct 1–514； UniProt 1–514

Cytochrome c oxidase subunit 2

OrganismNot specified

UniProt P68530

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COX2_BOVIN
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain B； PDBConstruct 1–227； UniProt 1–227 Author chain O； PDBConstruct 1–227； UniProt 1–227

Cytochrome c oxidase subunit 3

OrganismNot specified

UniProt P00415

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COX3_BOVIN
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain C； PDBConstruct 1–261； UniProt 1–261 Author chain P； PDBConstruct 1–261； UniProt 1–261

Cytochrome c oxidase subunit 4 isoform 1, mitochondrial

OrganismNot specified

UniProt P00423

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COX41_BOVIN
Isoform	—
PDB entities	4
Chains and sequence ranges	Author chain D； PDBConstruct 1–147； UniProt 23–169 Author chain Q； PDBConstruct 1–147； UniProt 23–169

Cytochrome c oxidase subunit 5A

OrganismNot specified

UniProt P00426

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COX5A_BOVIN
Isoform	—
PDB entities	5
Chains and sequence ranges	Author chain E； PDBConstruct 1–109； UniProt 44–152 Author chain R； PDBConstruct 1–109； UniProt 44–152

Cytochrome c oxidase subunit 5B, mitochondrial

OrganismNot specified

UniProt P00428

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COX5B_BOVIN
Isoform	—
PDB entities	6
Chains and sequence ranges	Author chain F； PDBConstruct 1–98； UniProt 32–129 Author chain S； PDBConstruct 1–98； UniProt 32–129

Cytochrome c oxidase subunit 6A2, mitochondrial

OrganismNot specified

UniProt P07471

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	CX6A2_BOVIN
Isoform	—
PDB entities	7
Chains and sequence ranges	Author chain G； PDBConstruct 1–85； UniProt 13–97 Author chain T； PDBConstruct 1–85； UniProt 13–97

Cytochrome c oxidase subunit 6B1

OrganismNot specified

UniProt P00429

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	CX6B1_BOVIN
Isoform	—
PDB entities	8
Chains and sequence ranges	Author chain H； PDBConstruct 1–85； UniProt 2–86 Author chain U； PDBConstruct 1–85； UniProt 2–86

Cytochrome c oxidase subunit 6C

OrganismNot specified

UniProt P04038

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COX6C_BOVIN
Isoform	—
PDB entities	9
Chains and sequence ranges	Author chain I； PDBConstruct 1–73； UniProt 2–74 Author chain V； PDBConstruct 1–73； UniProt 2–74

Cytochrome c oxidase subunit 7A1

OrganismNot specified

UniProt P07470

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	CX7A1_BOVIN
Isoform	—
PDB entities	10
Chains and sequence ranges	Author chain J； PDBConstruct 1–59； UniProt 22–80 Author chain W； PDBConstruct 1–59； UniProt 22–80

Cytochrome c oxidase subunit 7B, mitochondrial

OrganismNot specified

UniProt P13183

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COX7B_BOVIN
Isoform	—
PDB entities	11
Chains and sequence ranges	Author chain K； PDBConstruct 1–56； UniProt 25–80 Author chain X； PDBConstruct 1–56； UniProt 25–80

Cytochrome c oxidase subunit 7C, mitochondrial

OrganismNot specified

UniProt P00430

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 8B, mitochondrial × 2 （P10175） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COX7C_BOVIN
Isoform	—
PDB entities	12
Chains and sequence ranges	Author chain L； PDBConstruct 1–47； UniProt 17–63 Author chain Y； PDBConstruct 1–47； UniProt 17–63

Cytochrome c oxidase subunit 8B, mitochondrial

OrganismNot specified

UniProt P10175

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 26	Cytochrome c oxidase subunit 1 × 2 （P00396） Cytochrome c oxidase subunit 2 × 2 （P68530） Cytochrome c oxidase subunit 3 × 2 （P00415） Cytochrome c oxidase subunit 4 isoform 1, mitochondrial × 2 （P00423） Cytochrome c oxidase subunit 5A × 2 （P00426） Cytochrome c oxidase subunit 5B, mitochondrial × 2 （P00428） Cytochrome c oxidase subunit 6A2, mitochondrial × 2 （P07471） Cytochrome c oxidase subunit 6B1 × 2 （P00429） Cytochrome c oxidase subunit 6C × 2 （P04038） Cytochrome c oxidase subunit 7A1 × 2 （P07470） Cytochrome c oxidase subunit 7B, mitochondrial × 2 （P13183） Cytochrome c oxidase subunit 7C, mitochondrial × 2 （P00430） HEME-A × 4 COPPER (II) ION × 2 MAGNESIUM ION × 2 SODIUM ION × 2 CARDIOLIPIN × 6 EICOSANE × 26 DECYL-BETA-D-MALTOPYRANOSIDE × 42 1,2-ETHANEDIOL × 29 XENON × 16 (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 4 DINUCLEAR COPPER ION × 2 CHOLIC ACID × 6 UNKNOWN ATOM OR ION × 2 ZINC ION × 2 (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE × 2 water × 26	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COX8B_BOVIN
Isoform	—
PDB entities	13
Chains and sequence ranges	Author chain M； PDBConstruct 1–46； UniProt 25–70 Author chain Z； PDBConstruct 1–46； UniProt 25–70

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	9kum
Deposition date deposition_date	2024-12-04
Structure title title	Bovine Heart Cytochrome c Oxidase in the Xenon-bound Fully Reduced State
Keywords keywords	xenon, fully reduced, OXIDOREDUCTASE; OXIDOREDUCTASE
Experimental Method method	X-RAY DIFFRACTION

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9kum__assembly_1__model_1`	26-meric （26）	Excluded	—	—
	Exclusion reason： The source record does not identify the atom or ion element unambiguously, so a reliable calculation is not possible.

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (29)

Entity 1 Entity 1 polymer

Description description	Cytochrome c oxidase subunit 1
Molecular weight formula_weight	57093.9 kDa
EC 编号 ec_number	7.1.1.9
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,N
Atom count atom_count	33035

MFINRWLFSTNHKDIGTLYLLFGAWAGMVGTALSLLIRAELGQPGTLLGDDQIYNVVVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSFLLLLASSMVEAGAGTGWTVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTIINMKPPAMSQYQTPLFVWSVMITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPILYQHLFWFFGHPEVYILILPGFGMISHIVTYYSGKKEPFGYMGMVWAMMSIGFLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGNIKWSPAMMWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMGGFVHWFPLFSGYTLNDTWAKIHFAIMFVGVNMTFFPQHFLGLSGMPRRYSDYPDAYTMWNTISSMGSFISLTAVMLMVFIIWEAFASKREVLTVDLTTTNLEWLNGCPPPYHTFEEPTYVNLK

Entity 2 Entity 2 polymer

Description description	Cytochrome c oxidase subunit 2
Molecular weight formula_weight	26068.4 kDa
EC 编号 ec_number	7.1.1.9
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	B,O

MAYPMQLGFQDATSPIMEELLHFHDHTLMIVFLISSLVLYIISLMLTTKLTHTSTMDAQEVETIWTILPAIILILIALPSLRILYMMDEINNPSLTVKTMGHQWYWSYEYTDYEDLSFDSYMIPTSELKPGELRLLEVDNRVVLPMEMTIRMLVSSEDVLHSWAVPSLGLKTDAIPGRLNQTTLMSSRPGLYYGQCSEICGSNHSFMPIVLELVPLKYFEKWSASML

Entity 3 Entity 3 polymer

Description description	Cytochrome c oxidase subunit 3
Molecular weight formula_weight	29957.6 kDa
EC 编号 ec_number	7.1.1.9
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	C,P

MTHQTHAYHMVNPSPWPLTGALSALLMTSGLTMWFHFNSMTLLMIGLTTNMLTMYQWWRDVIRESTFQGHHTPAVQKGLRYGMILFIISEVLFFTGFFWAFYHSSLAPTPELGGCWPPTGIHPLNPLEVPLLNTSVLLASGVSITWAHHSLMEGDRKHMLQALFITITLGVYFTLLQASEYYEAPFTISDGVYGSTFFVATGFHGLHVIIGSTFLIVCFFRQLKFHFTSNHHFGFEAAAWYWHFVDVVWLFLYVSIYWWGS

Entity 4 Entity 4 polymer

Description description	Cytochrome c oxidase subunit 4 isoform 1, mitochondrial
Molecular weight formula_weight	17179.6 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	D,Q

AHGSVVKSEDYALPSYVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSIDEKVELYRLKFKESFAEMNRSTNEWKTVVGAAMFFIGFTALLLIWEKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK

Entity 5 Entity 5 polymer

Description description	Cytochrome c oxidase subunit 5A
Molecular weight formula_weight	12453.1 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	E,R

SHGSHETDEEFDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQELRPTLNELGISTPEELGLDKV

Entity 6 Entity 6 polymer

Description description	Cytochrome c oxidase subunit 5B, mitochondrial
Molecular weight formula_weight	10684.0 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	F,S

ASGGGVPTDEEQATGLEREVMLAARKGQDPYNILAPKATSGTKEDPNLVPSITNKRIVGCICEEDNSTVIWFWLHKGEAQRCPSCGTHYKLVPHQLAH

Entity 7 Entity 7 polymer

Description description	Cytochrome c oxidase subunit 6A2, mitochondrial
Molecular weight formula_weight	9549.8 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	G,T

ASAAKGDHGGTGARTWRFLTFGLALPSVALCTLNSWLHSGHRERPAFIPYHHLRIRTKPFSWGDGNHTFFHNPRVNPLPTGYEKP

Entity 8 Entity 8 polymer

Description description	Cytochrome c oxidase subunit 6B1
Molecular weight formula_weight	10039.2 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	H,U

AEDIQAKIKNYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVSTWDDRRAEGTFPGKI

Entity 9 Entity 9 polymer

Description description	Cytochrome c oxidase subunit 6C
Molecular weight formula_weight	8495.0 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	I,V

STALAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDFEEMRKAGIFQSAK

Entity 10 Entity 10 polymer

Description description	Cytochrome c oxidase subunit 7A1
Molecular weight formula_weight	6682.7 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	J,W

FENRVAEKQKLFQEDNGLPVHLKGGATDNILYRVTMTLCLGGTLYSLYCLGWASFPHKK

Entity 11 Entity 11 polymer

Description description	Cytochrome c oxidase subunit 7B, mitochondrial
Molecular weight formula_weight	6365.2 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	K,X

IHQKRAPDFHDKYGNAVLASGATFCVAVWVYMATQIGIEWNPSPVGRVTPKEWREQ

Entity 12 Entity 12 polymer

Description description	Cytochrome c oxidase subunit 7C, mitochondrial
Molecular weight formula_weight	5449.4 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	L,Y

SHYEEGPGKNIPFSVENKWRLLAMMTLFFGSGFAAPFFIVRHQLLKK

Entity 13 Entity 13 polymer

Description description	Cytochrome c oxidase subunit 8B, mitochondrial
Molecular weight formula_weight	4967.8 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	M,Z

ITAKPAKTPTSPKEQAIGLSVTFLSFLLPAGWVLYHLDNYKKSSAA

Entity 14 Entity 14 non-polymer

Description description	HEME-A
Molecular weight formula_weight	852.8 kDa
Source method src_method	syn
Copy count entity_count	4

Entity 15 Entity 15 non-polymer

Description description	COPPER (II) ION
Molecular weight formula_weight	63.5 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 16 Entity 16 non-polymer

Description description	MAGNESIUM ION
Molecular weight formula_weight	24.3 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 17 Entity 17 non-polymer

Description description	SODIUM ION
Molecular weight formula_weight	23.0 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 18 Entity 18 non-polymer

Description description	CARDIOLIPIN
Molecular weight formula_weight	1464.0 kDa
Source method src_method	syn
Copy count entity_count	6

Entity 19 Entity 19 non-polymer

Description description	EICOSANE
Molecular weight formula_weight	282.5 kDa
Source method src_method	syn
Copy count entity_count	26

Entity 20 Entity 20 non-polymer

Description description	DECYL-BETA-D-MALTOPYRANOSIDE
Molecular weight formula_weight	482.6 kDa
Source method src_method	syn
Copy count entity_count	42

Entity 21 Entity 21 non-polymer

Description description	1,2-ETHANEDIOL
Molecular weight formula_weight	62.1 kDa
Source method src_method	syn
Copy count entity_count	29

Entity 22 Entity 22 non-polymer

Description description	XENON
Molecular weight formula_weight	131.3 kDa
Source method src_method	syn
Copy count entity_count	16

Entity 23 Entity 23 non-polymer

Description description	(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE
Molecular weight formula_weight	749.0 kDa
Source method src_method	syn
Copy count entity_count	4

Entity 24 Entity 24 non-polymer

Description description	DINUCLEAR COPPER ION
Molecular weight formula_weight	127.1 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 25 Entity 25 non-polymer

Description description	CHOLIC ACID
Molecular weight formula_weight	408.6 kDa
Source method src_method	syn
Copy count entity_count	6

Entity 26 Entity 26 non-polymer

Description description	UNKNOWN ATOM OR ION
Source method src_method	syn
Copy count entity_count	2

Entity 27 Entity 27 non-polymer

Description description	ZINC ION
Molecular weight formula_weight	65.4 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 28 Entity 28 non-polymer

Description description	(1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE
Molecular weight formula_weight	768.1 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 29 Entity 29 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	1999

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Unit-cell length a length_a	182.500 Å
Unit-cell length b length_b	204.700 Å
Unit-cell length c length_c	177.800 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	8

Space group space_group	P 21 21 21
Space-group number int_tables_number	19
Crystal system crystal_system	—

Resolution resolution	1.800 Å
Low-resolution limit resolution_low	40.000 Å
R factor r_factor	0.1336
R_work r_work	0.1317
R_free r_free	0.1687

Bovine Heart Cytochrome c Oxidase in the Xenon-bound Fully Reduced State

1. Protein Identity and Related Structures Protein Identity & Related Structures

Cytochrome c oxidase subunit 1

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Cytochrome c oxidase subunit 2

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Cytochrome c oxidase subunit 3

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Cytochrome c oxidase subunit 4 isoform 1, mitochondrial

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Cytochrome c oxidase subunit 5A

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Cytochrome c oxidase subunit 5B, mitochondrial

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Cytochrome c oxidase subunit 6A2, mitochondrial

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Cytochrome c oxidase subunit 6B1

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Cytochrome c oxidase subunit 6C

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Cytochrome c oxidase subunit 7A1

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer