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Bovine Heart Cytochrome c Oxidase in the Nitric Oxide-Bound Fully Reduced State at 100 K

X-ray diffraction
1.8Å resolution
PDB entry 8ijn coloured by chain, front view.
PDB entry 8ijn coloured by chain, side view.
PDB entry 8ijn coloured by chain, top view.
Source organism: Bos taurus
Assembly composition:
hetero tridecamer (preferred)
Entry contents: 13 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Respiratory chain complex IV
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Multimeric state: hetero tridecamer
Accessible surface area: 61082.16 Å2
Buried surface area: 82448.42 Å2
Dissociation area: 1,594.92 Å2
Dissociation energy (ΔGdiss): 9.67 kcal/mol
Dissociation entropy (TΔSdiss): 12.06 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-132466
Assembly 2
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Assembly Name: Respiratory chain complex IV
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Multimeric state: hetero tridecamer
Accessible surface area: 60116.47 Å2
Buried surface area: 86116.84 Å2
Dissociation area: 1,725.64 Å2
Dissociation energy (ΔGdiss): 6.41 kcal/mol
Dissociation entropy (TΔSdiss): 12.1 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-132466

Macromolecules

Cytochrome c oxidase subunit 1
Chains: A, N
Length: 514 amino acids
Theoretical weight: 57.09 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00396 (Residues: 1-514; Coverage: 100%)
Gene names: COI, COXI, MT-CO1, MTCO1
Pfam: Cytochrome C and Quinol oxidase polypeptide I
InterPro:
Cytochrome c oxidase subunit 1 in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 1 in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 1 in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P00396  
151450100150200250300350400450500
 
200400*FINRWLFSTNHKDIGTLYLLFGAWAGMVGTALSLLIRAELGQPGTLLGDDQIYNVVVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSFLLLLASSMVEAGAGTGWTVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTIINMKPPAMSQYQTPLFVWSVMITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPILYQHLFWFFGHPEVYILILPGFGMISHIVTYYSGKKEPFGYMGMVWAMMSIGFLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGNIKWSPAMMWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMGGFVHWFPLFSGYTLNDTWAKIHFAIMFVGVNMTFFPQHFLGLSGMPRRYSDYPDAYTMWNTISSMGSFISLTAVMLMVFIIWEAFASKREVLTVDLTTTNLEWLNGCPPPYHTFEEPTYVNLK
UniProt
P00396
Chains
Domains
Secondary structure
Ligand binding sites
Interaction interfaces
Sequence conservation
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Cytochrome c oxidase subunit 2
Chains: B, O
Length: 227 amino acids
Theoretical weight: 26.07 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P68530 (Residues: 1-227; Coverage: 100%)
Gene names: COII, COX2, COXII, MT-CO2, MTCO2
Pfam:
InterPro:
Cytochrome c oxidase subunit 2 in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 2 in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 2 in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P68530  
122720406080100120140160180200220
 
100200*AYPMQLGFQDATSPIMEELLHFHDHTLMIVFLISSLVLYIISLMLTTKLTHTSTMDAQEVETIWTILPAIILILIALPSLRILYMMDEINNPSLTVKTMGHQWYWSYEYTDYEDLSFDSYMIPTSELKPGELRLLEVDNRVVLPMEMTIRMLVSSEDVLHSWAVPSLGLKTDAIPGRLNQTTLMSSRPGLYYGQCSEICGSNHSFMPIVLELVPLKYFEKWSASML
UniProt
P68530
Chains
Domains
Secondary structure
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Sequence conservation
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Cytochrome c oxidase subunit 3
Chains: C, P
Length: 261 amino acids
Theoretical weight: 29.96 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00415 (Residues: 1-261; Coverage: 100%)
Gene names: COIII, COXIII, MT-CO3, MTCO3
Pfam: Cytochrome c oxidase subunit III
InterPro:
Cytochrome c oxidase subunit 3 in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 3 in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 3 in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P00415  
126120406080100120140160180200220240260
 
100200MTHQTHAYHMVNPSPWPLTGALSALLMTSGLTMWFHFNSMTLLMIGLTTNMLTMYQWWRDVIRESTFQGHHTPAVQKGLRYGMILFIISEVLFFTGFFWAFYHSSLAPTPELGGCWPPTGIHPLNPLEVPLLNTSVLLASGVSITWAHHSLMEGDRKHMLQALFITITLGVYFTLLQASEYYEAPFTISDGVYGSTFFVATGFHGLHVIIGSTFLIVCFFRQLKFHFTSNHHFGFEAAAWYWHFVDVVWLFLYVSIYWWGS
UniProt
P00415
Chains
Domains
Secondary structure
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Interaction interfaces
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Cytochrome c oxidase subunit 4 isoform 1, mitochondrial
Chains: D, Q
Length: 147 amino acids
Theoretical weight: 17.18 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00423 (Residues: 23-169; Coverage: 87%)
Gene names: COX4, COX4I1
Pfam: Cytochrome c oxidase subunit IV
InterPro:
Cytochrome c oxidase subunit 4 isoform 1, mitochondrial in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 4 isoform 1, mitochondrial in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 4 isoform 1, mitochondrial in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P00423  
114720406080100120140
 
50100AHGSVVKSEDYALPSYVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSIDEKVELYRLKFKESFAEMNRSTNEWKTVVGAAMFFIGFTALLLIWEKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK
UniProt
P00423
Chains
Domains
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Cytochrome c oxidase subunit 5A, mitochondrial
Chains: E, R
Length: 109 amino acids
Theoretical weight: 12.45 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00426 (Residues: 44-152; Coverage: 72%)
Gene name: COX5A
Pfam: Cytochrome c oxidase subunit Va
InterPro:
Cytochrome c oxidase subunit 5A, mitochondrial in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 5A, mitochondrial in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 5A, mitochondrial in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P00426  
1109102030405060708090100
 
50100SHGSHETDEEFDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQELRPTLNELGISTPEELGLDKV
UniProt
P00426
Chains
Domains
Secondary structure
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Cytochrome c oxidase subunit 5B, mitochondrial
Chains: F, S
Length: 98 amino acids
Theoretical weight: 10.68 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00428 (Residues: 32-129; Coverage: 76%)
Gene name: COX5B
Pfam: Cytochrome c oxidase subunit Vb
InterPro:
Cytochrome c oxidase subunit 5B, mitochondrial in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 5B, mitochondrial in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 5B, mitochondrial in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P00428  
198102030405060708090
 
50ASGGGVPTDEEQATGLEREVMLAARKGQDPYNILAPKATSGTKEDPNLVPSITNKRIVGCICEEDNSTVIWFWLHKGEAQRCPSCGTHYKLVPHQLAH
UniProt
P00428
Chains
Domains
Secondary structure
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Cytochrome c oxidase subunit 6A2, mitochondrial
Chains: G, T
Length: 85 amino acids
Theoretical weight: 9.63 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P07471 (Residues: 13-97; Coverage: 88%)
Gene names: COX6A, COX6A2
Pfam: Cytochrome c oxidase subunit VIa
InterPro:
Cytochrome c oxidase subunit 6A2, mitochondrial in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 6A2, mitochondrial in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 6A2, mitochondrial in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P07471  
1851020304050607080
 
20406080ASAAKGDHGGTPOGARTWRFLTFGLALPSVALCTLNSWLHSGHRERPAFIPYHHLRIRTKPFSWGDGNHTFFHNPRVNPLPTGYEK
UniProt
P07471
Chains
Domains
Secondary structure
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Sequence conservation
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Cytochrome c oxidase subunit 6B1
Chains: H, U
Length: 85 amino acids
Theoretical weight: 10.04 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00429 (Residues: 2-86; Coverage: 99%)
Gene names: COX6B, COX6B1
Pfam: Cytochrome oxidase c subunit VIb
InterPro:
Cytochrome c oxidase subunit 6B1 in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 6B1 in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 6B1 in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P00429  
1851020304050607080
 
20406080AEDIQAKIKNYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVSTWDDRRAEGTFPGKI
UniProt
P00429
Chains
Domains
Secondary structure
Ligand binding sites
Interaction interfaces
Sequence conservation
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Cytochrome c oxidase subunit 6C
Chains: I, V
Length: 73 amino acids
Theoretical weight: 8.54 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P04038 (Residues: 2-74; Coverage: 99%)
Gene name: COX6C
Pfam: Cytochrome c oxidase subunit VIc
InterPro:
Cytochrome c oxidase subunit 6C in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 6C in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 6C in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P04038  
17310203040506070
 
204060*TALAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDFEEMRKAGIFQSAK
UniProt
P04038
Chains
Domains
Secondary structure
Ligand binding sites
Interaction interfaces
Sequence conservation
Molecule details ›

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Cytochrome c oxidase subunit 7A1, mitochondrial
Chains: J, W
Length: 59 amino acids
Theoretical weight: 6.68 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P07470 (Residues: 22-80; Coverage: 74%)
Gene names: COX7A, COX7A1, COX7AH
Pfam: Cytochrome c oxidase subunit VII
InterPro:
Cytochrome c oxidase subunit 7A1, mitochondrial in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 7A1, mitochondrial in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 7A1, mitochondrial in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P07470  
159510152025303540455055
 
204060FENRVAEKQKLFQEDNGLPVHLKGGATDNILYRVTMTLCLGGTLYSLYCLGWASFPHKK
UniProt
P07470
Chains
Domains
Secondary structure
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Interaction interfaces
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Cytochrome c oxidase subunit 7B, mitochondrial
Chains: K, X
Length: 56 amino acids
Theoretical weight: 6.37 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P13183 (Residues: 25-80; Coverage: 70%)
Gene name: COX7B
Pfam: Cytochrome C oxidase chain VIIB
InterPro:
Cytochrome c oxidase subunit 7B, mitochondrial in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 7B, mitochondrial in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 7B, mitochondrial in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P13183  
156510152025303540455055
 
2040IHQKRAPDFHDKYGNAVLASGATFCVAVWVYMATQIGIEWNPSPVGRVTPKEWREQ
UniProt
P13183
Chains
Domains
Secondary structure
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Interaction interfaces
Sequence conservation
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Cytochrome c oxidase subunit 7C, mitochondrial
Chains: L, Y
Length: 47 amino acids
Theoretical weight: 5.45 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P00430 (Residues: 17-63; Coverage: 75%)
Gene names: COX7C, COX7CP1
Pfam: Cytochrome c oxidase subunit VIIc
InterPro:
Cytochrome c oxidase subunit 7C, mitochondrial in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 7C, mitochondrial in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 7C, mitochondrial in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P00430  
14751015202530354045
 
2040SHYEEGPGKNIPFSVENKWRLLAMMTLFFGSGFAAPFFIVRHQLLKK
UniProt
P00430
Chains
Domains
Secondary structure
Ligand binding sites
Interaction interfaces
Sequence conservation
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Cytochrome c oxidase subunit 8B, mitochondrial
Chains: M, Z
Length: 46 amino acids
Theoretical weight: 4.97 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P10175 (Residues: 25-70; Coverage: 66%)
Gene names: COX8B, COX8H
Pfam: Cytochrome oxidase c subunit VIII
InterPro:
Cytochrome c oxidase subunit 8B, mitochondrial in PDB entry 8ijn, assembly 1, front view.
Cytochrome c oxidase subunit 8B, mitochondrial in PDB entry 8ijn, assembly 1, side view.
Cytochrome c oxidase subunit 8B, mitochondrial in PDB entry 8ijn, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P10175  
14651015202530354045
 
2040ITAKPAKTPTSPKEQAIGLSVTFLSFLLPAGWVLYHLDNYKKSSAA
UniProt
P10175
Chains
Domains
Secondary structure
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Interaction interfaces
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