6NMP Oxidoreductase date Jan 11, 2019
title Sfx Structure Of Oxidized Cytochrome C Oxidase At Room Tempe
authors D.L.Rousseau, S.R.Yeh, I.Ishigami
compound source
Molecule: Cytochrome C Oxidase Subunit 1
Chain: A, N
Synonym: Cytochrome C Oxidase Polypeptide I
Ec: 1.9.3.1
 Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 2
Chain: B, O
Synonym: Cytochrome C Oxidase Polypeptide II
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 3
Chain: C, P
Synonym: Cytochrome C Oxidase Polypeptide III
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 4 Isoform 1, Mitocho
Chain: D, Q
Synonym: Cytochrome C Oxidase Polypeptide Iv,Cytochrome C O Subunit Iv Isoform 1,Cox Iv-1;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 5a, Mitochondrial
Chain: E, R
Synonym: Cytochrome C Oxidase Polypeptide Va
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 5b, Mitochondrial
Chain: F, S
Synonym: Cytochrome C Oxidase Polypeptide Via,Cytochrome C Polypeptide Vb;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 6a2, Mitochondrial
Chain: G, T
Synonym: Cytochrome C Oxidase Polypeptide Via-Heart,Coxviah Cytochrome C Oxidase Polypeptide Vib;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 6b1
Chain: H, U
Synonym: Cytochrome C Oxidase Polypeptide Vii,Cytochrome C Subunit Aed,Cytochrome C Oxidase Subunit Vib Isoform 1,Cox
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 6c
Chain: I, V
Synonym: Cytochrome C Oxidase Polypeptide Vic,Cytochrome C Subunit Sta;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 7a1, Mitochondrial
Chain: J, W
Synonym: Cytochrome C Oxidase Subunit Viiic,Viiic,Cytochrom Oxidase Subunit Viia-Heart,Cytochrome C Oxidase Subunit Vii Cytochrome C Oxidase Subunit Viia-Muscle,Cytochrome C Oxida Viia-M;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 7b, Mitochondrial
Chain: K, X
Synonym: Cytochrome C Oxidase Polypeptide Viib,Ihq
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 7c, Mitochondrial
Chain: L, Y
Synonym: Cytochrome C Oxidase Polypeptide Viiia,Cytochrome Polypeptide Viic;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 8b, Mitochondrial
Chain: M, Z
Synonym: Cytochrome C Oxidase Polypeptide Viii-Heart,Cytoch Oxidase Subunit 8-1,Cytochrome C Oxidase Subunit 8h,Ix,Viii
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913
symmetry Space Group: P 21 21 21
R_factor 0.192 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
178.700 189.800 211.300 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand CDL, CHD, CU, CUA, DMU, FME, HEA, MG, NA, PEK, PER, PGV, PSC, SAC, TGL, TPO, ZN enzyme Oxidoreductase E.C.1.9.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
C, P
  • cytochrome-c oxidase activit...
  • oxidoreduction-driven active...


    • E, R


    H, U


    J, W


    K, X


    N, A


    O, B
  • cytochrome-c oxidase activit...


    • Q, D


    S, F


    T, G


    V, I
  • cytochrome-c oxidase activit...


    • Y, L


    Z, M


    Primary referenceSnapshot of an oxygen intermediate in the catalytic reaction of cytochrome c oxidase., Ishigami I, Lewis-Ballester A, Echelmeier A, Brehm G, Zatsepin NA, Grant TD, Coe JD, Lisova S, Nelson G, Zhang S, Dobson ZF, Boutet S, Sierra RG, Batyuk A, Fromme P, Fromme R, Spence JCH, Ros A, Yeh SR, Rousseau DL, Proc Natl Acad Sci U S A. 2019 Feb 26;116(9):3572-3577. doi:, 10.1073/pnas.1814526116. Epub 2019 Feb 11. PMID:30808749
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (644 Kb) [Save to disk]
  • Biological Unit Coordinates (6nmp.pdb1.gz) 621 Kb
  • LPC: Ligand-Protein Contacts for 6NMP
  • CSU: Contacts of Structural Units for 6NMP
  • Structure Factors (4787 Kb)
  • Retrieve 6NMP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6NMP from S2C, [Save to disk]
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    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6nmp_S] [6nmp_T] [6nmp_U] [6nmp_B] [6nmp_G] [6nmp_H] [6nmp_Y] [6nmp_R] [6nmp_E] [6nmp_W] [6nmp_M] [6nmp_L] [6nmp_P] [6nmp_J] [6nmp_Q] [6nmp_A] [6nmp_K] [6nmp_C] [6nmp_O] [6nmp_Z] [6nmp_F] [6nmp_N] [6nmp_I] [6nmp_V] [6nmp_D] [6nmp_X]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6NMP
  • Community annotation for 6NMP at PDBWiki (http://pdbwiki.org)

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