155C

THE STRUCTURE OF PARACOCCUS DENITRIFICANS CYTOCHROME C550


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The structure of Paracoccus denitrificans cytochrome c550.

Timkovich, R.Dickerson, R.E.

(1976) J Biol Chem 251: 4033-4046

  • DOI: 10.2210/pdb155c/pdb
  • Primary Citation of Related Structures:  
    155C

  • PubMed Abstract: 
  • The crystal structure of Paracoccus (formerly Micrococcus) denitrificans cytochrome c550 has been solved by x-ray diffraction to a resolution of 2.45 A. In both amino acid sequence and molecular structure it is evolutionarily homologous with mitochondrial cytochrome c from eukaryotes and photosynthetic cytochrome c2 from purple non-sulfur bacteria ...

    The crystal structure of Paracoccus (formerly Micrococcus) denitrificans cytochrome c550 has been solved by x-ray diffraction to a resolution of 2.45 A. In both amino acid sequence and molecular structure it is evolutionarily homologous with mitochondrial cytochrome c from eukaryotes and photosynthetic cytochrome c2 from purple non-sulfur bacteria. All of these cytochromes c have the same basic folding pattern, with surface insertions of extra amino acids in c550. Various strains of c2 have all, some, or none of the extra insertions observed in c550. The hydrophobic heme environment, position of aromatic rings, and structure and environment of the heme crevice, are virtually identical in cytochromes c55o, c, and c2. Radical changes observed at all regions on the molecular surface except the heme crevice argue for the importance of the crevice and the exposed edge of the heme in the transfer of electrons to and from the cytochrome molecule.


    Related Citations: 
    • Amino Acid Sequence of Paracoccus Denitrificans Cytochrome C550
      Timkovich, R., Dickerson, R.E., Margoliash, E.
      (1976) J Biol Chem 251: 2197

    Organizational Affiliation

    Structural Genomics Consortium, Nuffield Department of Clinical Medicine, University of Oxford, UK OX3 7DQ.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CYTOCHROME C550A135Paracoccus denitrificansMutation(s): 0 
Gene Names: cycA
Find proteins for P00096 (Paracoccus denitrificans)
Explore P00096 
Go to UniProtKB:  P00096
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

Download Ideal Coordinates CCD File 
B [auth A]PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 42.7α = 90
b = 82.17β = 90
c = 31.56γ = 90

Structure Validation

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Entry History 

Deposition Data

  • Deposited Date: 1976-08-01 
  • Released Date: 1976-08-20 
  • Deposition Author(s): Timkovich, R.

Revision History  (Full details and data files)

  • Version 1.0: 1976-08-20
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance