3MK7 Oxidoreductase date Apr 14, 2010
title The Structure Of Cbb3 Cytochrome Oxidase
authors S.Buschmann, E.Warkentin, H.Michel, U.Ermler
compound source
Molecule: Cytochrome C Oxidase, Cbb3-Type, Subunit N
Chain: A, D, G, K
Organism_scientific: Pseudomonas Stutzeri
Organism_taxid: 316
Strain: Zobell

Molecule: Cytochrome C Oxidase, Cbb3-Type, Subunit O
Chain: B, E, H, L

Organism_scientific: Pseudomonas Stutzeri
Organism_taxid: 316
Strain: Zobell

Molecule: Cytochrome C Oxidase, Cbb3-Type, Subunit P
Chain: C, F, I, M

Organism_scientific: Pseudomonas Stutzeri
Organism_taxid: 316
Strain: Zobell

Molecule: 30-Mer Peptide
Chain: U, X, Y, Z

Organism_scientific: Pseudomonas Stutzeri
Organism_taxid: 316
Strain: Zobell
symmetry Space Group: P 21 21 2
R_factor 0.189 R_Free 0.223
crystal
cell
length a length b length c angle alpha angle beta angle gamma
136.475 279.933 175.192 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.20 Å
ligand CA, CU, FC6, HEC, HEM, PEO, PO4 enzyme
note 3MK7 is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, K, D, G
  • heme binding

  • cytochrome complex
  • E, B, H, L
  • electron transfer activity


  • F, M, C, I
  • electron transfer activity


  • Primary referenceThe structure of cbb3 cytochrome oxidase provides insights into proton pumping., Buschmann S, Warkentin E, Xie H, Langer JD, Ermler U, Michel H, Science. 2010 Jul 16;329(5989):327-30. Epub 2010 Jun 24. PMID:20576851
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1384 Kb) [Save to disk]
  • Biological Unit Coordinates (3mk7.pdb1.gz) 344 Kb
  • Biological Unit Coordinates (3mk7.pdb2.gz) 355 Kb
  • Biological Unit Coordinates (3mk7.pdb3.gz) 346 Kb
  • Biological Unit Coordinates (3mk7.pdb4.gz) 352 Kb
  • LPC: Ligand-Protein Contacts for 3MK7
  • CSU: Contacts of Structural Units for 3MK7
  • Structure Factors (1970 Kb)
  • Retrieve 3MK7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MK7 from S2C, [Save to disk]
  • Re-refined 3mk7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MK7 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 3MK7
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3MK7, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mk7] [3mk7_C] [3mk7_I] [3mk7_Y] [3mk7_K] [3mk7_F] [3mk7_A] [3mk7_Z] [3mk7_U] [3mk7_X] [3mk7_E] [3mk7_M] [3mk7_L] [3mk7_G] [3mk7_D] [3mk7_H] [3mk7_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3MK7
  • Community annotation for 3MK7 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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