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Structure of Surface-engineered Cytochrome ba3 Oxidase from Thermus thermophilus under Xenon Pressure, 100psi 5min

Source organism: Thermus thermophilus HB8
Biochemical function: cytochrome-c oxidase activity
Biological process: proton transmembrane transport
Cellular component: respirasome

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EC 7.1.1.9: Cytochrome-c oxidase

Reaction catalysed:
4 ferrocytochrome c + O(2) + 8 H(+)(Side 1) = 4 ferricytochrome c + 4 H(2)O(Side 2)
Systematic name:
Ferrocytochrome-c:oxygen oxidoreductase
Alternative Name(s):
  • Complex IV (mitochondrial electron transport)
  • Cytochrome a3
  • Cytochrome aa3
  • Cytochrome ba(3)
  • Cytochrome bb3
  • Cytochrome caa(3)
  • Cytochrome cbb(3)
  • Cytochrome oxidase
  • Ferrocytochrome c oxidase
  • Indophenol oxidase
  • Indophenolase
  • NADH cytochrome c oxidase
  • Warburg's respiratory enzyme

GO terms

Biochemical function:
Biological process:
Cellular component:

Sequence families

Pfam Protein families (Pfam)
PF08113
Domain description: Cytochrome c oxidase subunit IIa family
Occurring in:
  1. Cytochrome c oxidase polypeptide 2A
The deposited structure of PDB entry 3bvd contains 1 copy of Pfam domain PF08113 (Cytochrome c oxidase subunit IIa family) in Cytochrome c oxidase polypeptide 2A. Showing 1 copy in chain C.

PF00116
Domain description: Cytochrome C oxidase subunit II, periplasmic domain
Occurring in:
  1. Cytochrome c oxidase subunit 2
The deposited structure of PDB entry 3bvd contains 1 copy of Pfam domain PF00116 (Cytochrome C oxidase subunit II, periplasmic domain) in Cytochrome c oxidase subunit 2. Showing 1 copy in chain B.

PF09125
Domain description: Cytochrome C oxidase subunit II, transmembrane
Occurring in:
  1. Cytochrome c oxidase subunit 2
The deposited structure of PDB entry 3bvd contains 1 copy of Pfam domain PF09125 (Cytochrome C oxidase subunit II, transmembrane) in Cytochrome c oxidase subunit 2. Showing 1 copy in chain B.

PF00115
Domain description: Cytochrome C and Quinol oxidase polypeptide I
Occurring in:
  1. Cytochrome c oxidase subunit 1
The deposited structure of PDB entry 3bvd contains 1 copy of Pfam domain PF00115 (Cytochrome C and Quinol oxidase polypeptide I) in Cytochrome c oxidase subunit 1. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR000883
Domain description: Cytochrome c oxidase subunit I
Occurring in:
  1. Cytochrome c oxidase subunit 1
IPR002429
Domain description: Cytochrome c oxidase subunit II-like C-terminal
Occurring in:
  1. Cytochrome c oxidase subunit 2
IPR008972
Domain description: Cupredoxin
Occurring in:
  1. Cytochrome c oxidase subunit 2
IPR036927
Domain description: Cytochrome c oxidase-like, subunit I superfamily
Occurring in:
  1. Cytochrome c oxidase subunit 1
IPR036246
Domain description: Cytochrome c oxidase polypeptide 2A, ba3 type
Occurring in:
  1. Cytochrome c oxidase polypeptide 2A
IPR012538
Domain description: Cytochrome c oxidase polypeptide 2A
Occurring in:
  1. Cytochrome c oxidase polypeptide 2A
IPR001505
Domain description: Copper centre Cu(A)
Occurring in:
  1. Cytochrome c oxidase subunit 2
IPR034214
Domain description: Ba3-like heme-copper oxidase subunit II, C-terminal
Occurring in:
  1. Cytochrome c oxidase subunit 2
IPR036257
Domain description: Cytochrome C oxidase subunit II, transmembrane domain superfamily
Occurring in:
  1. Cytochrome c oxidase subunit 2
IPR015209
Domain description: Cytochrome C oxidase subunit IIa, transmembrane domain
Occurring in:
  1. Cytochrome c oxidase subunit 2
IPR023615
Domain description: Cytochrome c oxidase, subunit I, copper-binding site
Occurring in:
  1. Cytochrome c oxidase subunit 1
IPR033943
Domain description: Ba3-like heme-copper oxidase subunit I
Occurring in:
  1. Cytochrome c oxidase subunit 1
IPR023616
Domain description: Cytochrome c oxidase-like, subunit I domain
Occurring in:
  1. Cytochrome c oxidase subunit 1

Structure domains

CATH CATH domains
2.60.40.420
Class: Mainly Beta
Architecture: Sandwich
Topology: Immunoglobulin-like
Homology: Cupredoxins - blue copper proteins
Occurring in:
  1. Cytochrome c oxidase subunit 2
The deposited structure of PDB entry 3bvd contains 1 copy of CATH domain 2.60.40.420 (Immunoglobulin-like) in Cytochrome c oxidase subunit 2. Showing 1 copy in chain B.
1.20.1070.10
Class: Mainly Alpha
Architecture: Up-down Bundle
Topology: Rhopdopsin 7-helix transmembrane proteins
Homology: Rhodopsin 7-helix transmembrane proteins
Occurring in:
  1. Cytochrome c oxidase subunit 2
The deposited structure of PDB entry 3bvd contains 1 copy of CATH domain 1.20.1070.10 (Rhopdopsin 7-helix transmembrane proteins) in Cytochrome c oxidase subunit 2. Showing 1 copy in chain B.
1.20.210.10
Class: Mainly Alpha
Architecture: Up-down Bundle
Topology: Cytochrome C Oxidase; Chain A
Homology: Cytochrome c oxidase-like, subunit I domain
Occurring in:
  1. Cytochrome c oxidase subunit 1
The deposited structure of PDB entry 3bvd contains 1 copy of CATH domain 1.20.210.10 (Cytochrome C Oxidase; Chain A) in Cytochrome c oxidase subunit 1. Showing 1 copy in chain A.
SCOP SCOP annotations
81472
Class: Membrane and cell surface proteins and peptides
Fold: Single transmembrane helix
Superfamily: Bacterial ba3 type cytochrome c oxidase subunit IIa
Occurring in:
  1. Cytochrome c oxidase polypeptide 2A
The deposited structure of PDB entry 3bvd contains 1 copy of SCOP domain 81472 (Bacterial ba3 type cytochrome c oxidase subunit IIa) in Cytochrome c oxidase polypeptide 2A. Showing 1 copy in chain C.
49541
Class: All beta proteins
Fold: Cupredoxin-like
Superfamily: Cupredoxins
Occurring in:
  1. Cytochrome c oxidase subunit 2
The deposited structure of PDB entry 3bvd contains 1 copy of SCOP domain 49541 (Periplasmic domain of cytochrome c oxidase subunit II) in Cytochrome c oxidase subunit 2. Showing 1 copy in chain B.
81463
Class: Membrane and cell surface proteins and peptides
Fold: Transmembrane helix hairpin
Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region
Occurring in:
  1. Cytochrome c oxidase subunit 2
The deposited structure of PDB entry 3bvd contains 1 copy of SCOP domain 81463 (Cytochrome c oxidase subunit II-like, transmembrane region) in Cytochrome c oxidase subunit 2. Showing 1 copy in chain B.

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