1V54 Oxidoreductase date Nov 21, 2003
title Bovine Heart Cytochrome C Oxidase At The Fully Oxidized Stat
authors T.Tsukihara, K.Shimokata, Y.Katayama, H.Shimada, K.Muramoto, H.Ao M.Mochizuki, K.Shinzawa-Itoh, E.Yamashita, M.Yao, Y.Ishimura, S.
compound source
Molecule: Cytochrome C Oxidase Polypeptide I
Chain: A, N
Ec: 1.9.3.1
Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

Molecule: Cytochrome C Oxidase Polypeptide II
Chain: B, O
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

Molecule: Cytochrome C Oxidase Polypeptide III
Chain: C, P
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

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

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

Molecule: Cytochrome C Oxidase Polypeptide Va
Chain: E, R
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

Molecule: Cytochrome C Oxidase Polypeptide Vb
Chain: F, S
Synonym: Vi
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

Molecule: Cytochrome C Oxidase Polypeptide Via-Heart
Chain: G, T
Synonym: Coxviah, Polypeptide Vib
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

Molecule: Cytochrome C Oxidase Polypeptide Vib
Chain: H, U
Synonym: Aed
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

Molecule: Cytochrome C Oxidase Polypeptide Vic
Chain: I, V
Synonym: Sta
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

Molecule: Cytochrome C Oxidase Polypeptide Viia-Heart
Chain: J, W
Synonym: Cytochrome C Oxidase Subunit Viia-H, Cox Viia-M, V
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

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

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

Molecule: Cytochrome C Oxidase Polypeptide Viic
Chain: L, Y
Synonym: Viiia
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart

Molecule: Cytochrome C Oxidase Polypeptide Viii-Heart
Chain: M, Z
Synonym: Viiib, Ix
Ec: 1.9.3.1

Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Heart
symmetry Space Group: P 21 21 21
R_factor 0.202 R_Free 0.227
crystal
cell
length a length b length c angle alpha angle beta angle gamma
182.590 205.140 178.250 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand CDL, CHD, CU, CUA, DMU, FME, HEA, MG, NA, PEK, PGV, PSC, SAC, TGL, TPO, UNX, ZN enzyme Oxidoreductase E.C.1.9.3.1 BRENDA
related structures by homologous chain: 1V55
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 referenceThe low-spin heme of cytochrome c oxidase as the driving element of the proton-pumping process., Tsukihara T, Shimokata K, Katayama Y, Shimada H, Muramoto K, Aoyama H, Mochizuki M, Shinzawa-Itoh K, Yamashita E, Yao M, Ishimura Y, Yoshikawa S, Proc Natl Acad Sci U S A 2003 Dec 23;100(26):15304-9. Epub 2003 Dec 12. PMID:14673090
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (670 Kb) [Save to disk]
  • Biological Unit Coordinates (1v54.pdb1.gz) 649 Kb
  • LPC: Ligand-Protein Contacts for 1V54
  • CSU: Contacts of Structural Units for 1V54
  • Likely Quarternary Molecular Structure file(s) for 1V54
  • Retrieve 1V54 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1V54 from S2C, [Save to disk]
  • View 1V54 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1V54
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1V54, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1v54a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1v54b2, region B:1-90 [Jmol] [rasmolscript] [script source]
        - Domain d1v54b1, region B:91-227 [Jmol] [rasmolscript] [script source]
        - Domain d1v54c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1v54d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1v54e_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1v54f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1v54g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1v54h_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1v54i_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1v54j_, region J [Jmol] [rasmolscript] [script source]
        - Domain d1v54k_, region K [Jmol] [rasmolscript] [script source]
        - Domain d1v54l_, region L [Jmol] [rasmolscript] [script source]
        - Domain d1v54m_, region M [Jmol] [rasmolscript] [script source]
        - Domain d1v54n_, region N [Jmol] [rasmolscript] [script source]
        - Domain d1v54o2, region O:1-90 [Jmol] [rasmolscript] [script source]
        - Domain d1v54o1, region O:91-227 [Jmol] [rasmolscript] [script source]
        - Domain d1v54p_, region P [Jmol] [rasmolscript] [script source]
        - Domain d1v54q_, region Q [Jmol] [rasmolscript] [script source]
        - Domain d1v54r_, region R [Jmol] [rasmolscript] [script source]
        - Domain d1v54s_, region S [Jmol] [rasmolscript] [script source]
        - Domain d1v54t_, region T [Jmol] [rasmolscript] [script source]
        - Domain d1v54u_, region U [Jmol] [rasmolscript] [script source]
        - Domain d1v54v_, region V [Jmol] [rasmolscript] [script source]
        - Domain d1v54w_, region W [Jmol] [rasmolscript] [script source]
        - Domain d1v54x_, region X [Jmol] [rasmolscript] [script source]
        - Domain d1v54y_, region Y [Jmol] [rasmolscript] [script source]
        - Domain d1v54z_, region Z [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1v54_D] [1v54_M] [1v54_B] [1v54_O] [1v54_P] [1v54_N] [1v54_W] [1v54_Q] [1v54_A] [1v54_S] [1v54_Y] [1v54] [1v54_V] [1v54_H] [1v54_F] [1v54_E] [1v54_U] [1v54_L] [1v54_I] [1v54_Z] [1v54_K] [1v54_T] [1v54_J] [1v54_R] [1v54_X] [1v54_G] [1v54_C]
  • SWISS-PROT database: [P00396] [P68530] [P00415] [P00423] [P00426] [P00428] [P04038] [P13183] [P00430] [P10175] [P07471] [P00429] [P07470]
  • Belongs to the proton-translocating cytochrome oxidase (cox) superfamily according to TCDB.
  • Domain organization of [COX1_BOVIN] [COX2_BOVIN] [COX3_BOVIN] [COX41_BOVIN] [COX5A_BOVIN] [COX5B_BOVIN] [COX6C_BOVIN] [COX7B_BOVIN] [COX7C_BOVIN] [COX8B_BOVIN] [CX6A2_BOVIN] [CX6B1_BOVIN] [CX7A1_BOVIN] by SWISSPFAM
  • Other resources with information on 1V54
  • Community annotation for 1V54 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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