3ABK Oxidoreductase date Dec 16, 2009
title Bovine Heart Cytochrome C Oxidase At The No-Bound Fully Redu (50k)
authors K.Ohta, K.Muramoto, K.Shinzawa-Itoh, E.Yamashita, S.Yoshikawa, T.
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 0.183 R_Free 0.219
crystal
cell
length a length b length c angle alpha angle beta angle gamma
182.247 207.944 177.997 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand CDL, CHD, CU, CUA, DMU, FME, HEA, MG, NA, NO, 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 referenceX-ray structure of the NO-bound Cu(B) in bovine cytochrome c oxidase., Ohta K, Muramoto K, Shinzawa-Itoh K, Yamashita E, Yoshikawa S, Tsukihara T, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Mar 1;66(Pt, 3):251-3. Epub 2010 Feb 23. PMID:20208153
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (668 Kb) [Save to disk]
  • Biological Unit Coordinates (3abk.pdb1.gz) 329 Kb
  • Biological Unit Coordinates (3abk.pdb2.gz) 327 Kb
  • LPC: Ligand-Protein Contacts for 3ABK
  • CSU: Contacts of Structural Units for 3ABK
  • Structure Factors (3423 Kb)
  • Retrieve 3ABK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3ABK from S2C, [Save to disk]
  • Re-refined 3abk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3ABK 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 3ABK
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3ABK, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3abk_Y] [3abk_E] [3abk_N] [3abk] [3abk_P] [3abk_K] [3abk_F] [3abk_A] [3abk_J] [3abk_O] [3abk_U] [3abk_V] [3abk_M] [3abk_S] [3abk_G] [3abk_X] [3abk_D] [3abk_Z] [3abk_C] [3abk_T] [3abk_R] [3abk_I] [3abk_B] [3abk_W] [3abk_H] [3abk_Q] [3abk_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3ABK
  • Community annotation for 3ABK at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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