1v54 image
Deposition Date 2003-11-21
Release Date 2003-12-23
Last Version Date 2023-12-27
Entry Detail
PDB ID:
1V54
Keywords:
Title:
Bovine heart cytochrome c oxidase at the fully oxidized state
Biological Source:
Source Organism:
Bos taurus (Taxon ID: 9913)
Method Details:
Experimental Method:
Resolution:
1.80 Å
R-Value Free:
0.22
R-Value Work:
0.20
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide I
Gene (Uniprot):MT-CO1
Chain IDs:A, N
Chain Length:514
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide II
Gene (Uniprot):MT-CO2
Chain IDs:B, O
Chain Length:227
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide III
Gene (Uniprot):MT-CO3
Chain IDs:C, P
Chain Length:261
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit IV isoform 1
Gene (Uniprot):COX4I1
Chain IDs:D, Q
Chain Length:147
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide Va
Gene (Uniprot):COX5A
Chain IDs:E, R
Chain Length:109
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide Vb
Gene (Uniprot):COX5B
Chain IDs:F, S
Chain Length:98
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide VIa-heart
Gene (Uniprot):COX6A2
Chain IDs:G, T
Chain Length:85
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide VIb
Gene (Uniprot):COX6B1
Chain IDs:H, U
Chain Length:85
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide VIc
Gene (Uniprot):COX6C
Chain IDs:I, V
Chain Length:73
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide VIIa-heart
Gene (Uniprot):COX7A1
Chain IDs:J, W
Chain Length:59
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide VIIb
Gene (Uniprot):COX7B
Chain IDs:K, X
Chain Length:56
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide VIIc
Gene (Uniprot):COX7C
Chain IDs:L, Y
Chain Length:47
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase polypeptide VIII-heart
Gene (Uniprot):COX8B
Chain IDs:M, Z
Chain Length:46
Number of Molecules:2
Biological Source:Bos taurus
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
FME A MET N-FORMYLMETHIONINE
SAC I SER N-ACETYL-SERINE
TPO G THR PHOSPHOTHREONINE
Primary Citation
The low-spin heme of cytochrome c oxidase as the driving element of the proton-pumping process.
Proc.Natl.Acad.Sci.Usa 100 15304 15309 (2003)
PMID: 14673090 DOI: 10.1073/pnas.2635097100

Abstact

Mitochondrial cytochrome c oxidase plays an essential role in aerobic cellular respiration, reducing dioxygen to water in a process coupled with the pumping of protons across the mitochondrial inner membrane. An aspartate residue, Asp-51, located near the enzyme surface, undergoes a redox-coupled x-ray structural change, which is suggestive of a role for this residue in redox-driven proton pumping. However, functional or mechanistic evidence for the involvement of this residue in proton pumping has not yet been obtained. We report that the Asp-51 --> Asn mutation of the bovine enzyme abolishes its proton-pumping function without impairment of the dioxygen reduction activity. Improved x-ray structures (at 1.8/1.9-A resolution in the fully oxidized/reduced states) show that the net positive charge created upon oxidation of the low-spin heme of the enzyme drives the active proton transport from the interior of the mitochondria to Asp-51 across the enzyme via a water channel and a hydrogen-bond network, located in tandem, and that the enzyme reduction induces proton ejection from the aspartate to the mitochondrial exterior. A peptide bond in the hydrogen-bond network critically inhibits reverse proton transfer through the network. A redox-coupled change in the capacity of the water channel, induced by the hydroxyfarnesylethyl group of the low-spin heme, suggests that the channel functions as an effective proton-collecting region. Infrared results indicate that the conformation of Asp-51 is controlled only by the oxidation state of the low-spin heme. These results indicate that the low-spin heme drives the proton-pumping process.

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Primary Citation of related structures