3AG4 Oxidoreductase date Mar 19, 2010
title Bovine Heart Cytochrome C Oxidase In The Cyanide Ion-Bound F Reduced State At 100 K
authors K.Muramoto, K.Ohta, K.Shinzawa-Itoh, K.Kanda, M.Taniguchi, H.Nabe E.Yamashita, T.Tsukihara, S.Yoshikawa
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
Ec: 1.9.3.1

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
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 4 Isoform 1
Chain: D, Q
Synonym: Cytochrome C Oxidase Subunit Iv Isoform 1, Cox Iv- Cytochrome C Oxidase Polypeptide Iv;
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 5a
Chain: E, R
Synonym: Cytochrome C Oxidase Polypeptide Va
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 5b
Chain: F, S
Synonym: Cytochrome C Oxidase Polypeptide Vb, Cytochrome C Polypeptide Via;
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 6a2
Chain: G, T
Synonym: Cytochrome C Oxidase Polypeptide Via-Heart, Coxvia Cytochrome C Oxidase Polypeptide Vib;
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 6b1
Chain: H, U
Synonym: Cytochrome C Oxidase Subunit Vib Isoform 1, Cox Vi Cytochrome C Oxidase Polypeptide Vii, Cytochrome C Oxidase Aed;
Ec: 1.9.3.1

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;
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Polypeptide 7a1
Chain: J, W
Synonym: Cytochrome C Oxidase Polypeptide Viia-Heart, Cytoc Oxidase Subunit Viia-H, Cox Viia-M, Viiic;
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 7b
Chain: K, X
Synonym: Cytochrome C Oxidase Polypeptide Viib, Ihq
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 7c
Chain: L, Y
Synonym: Cytochrome C Oxidase Polypeptide Viic, Cytochrome Polypeptide Viiia;
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C Oxidase Subunit 8b
Chain: M, Z
Synonym: Cytochrome C Oxidase Subunit 8h, Cytochrome C Oxid Polypeptide Viii-Heart, Cytochrome C Oxidase Subunit 8-1, V
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913
symmetry Space Group: P 21 21 21
R_factor 0.186 R_Free 0.219
crystal
cell
length a length b length c angle alpha angle beta angle gamma
183.364 206.648 178.137 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.05 Å
ligand CDL, CHD, CU, CUA, CYN, DMU, FME, HEA, MG, NA, PEK, PGV, PSC, SAC, TGL, TPO, UNX, 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 referenceBovine cytochrome c oxidase structures enable O2 reduction with minimization of reactive oxygens and provide a proton-pumping gate., Muramoto K, Ohta K, Shinzawa-Itoh K, Kanda K, Taniguchi M, Nabekura H, Yamashita E, Tsukihara T, Yoshikawa S, Proc Natl Acad Sci U S A. 2010 Apr 12. PMID:20385840
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (682 Kb) [Save to disk]
  • Biological Unit Coordinates (3ag4.pdb1.gz) 336 Kb
  • Biological Unit Coordinates (3ag4.pdb2.gz) 332 Kb
  • LPC: Ligand-Protein Contacts for 3AG4
  • CSU: Contacts of Structural Units for 3AG4
  • Structure Factors (3284 Kb)
  • Retrieve 3AG4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3AG4 from S2C, [Save to disk]
  • Re-refined 3ag4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3AG4 in 3D
  • Proteopedia, because life has more than 2D.
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  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3AG4
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3AG4, from MSDmotif at EBI
  • Fold representative 3ag4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ag4_J] [3ag4_Q] [3ag4] [3ag4_K] [3ag4_W] [3ag4_M] [3ag4_X] [3ag4_E] [3ag4_V] [3ag4_G] [3ag4_D] [3ag4_A] [3ag4_F] [3ag4_U] [3ag4_N] [3ag4_Z] [3ag4_Y] [3ag4_O] [3ag4_H] [3ag4_T] [3ag4_C] [3ag4_S] [3ag4_B] [3ag4_P] [3ag4_L] [3ag4_R] [3ag4_I]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3AG4
  • Community annotation for 3AG4 at PDBWiki (http://pdbwiki.org)
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