Crystal Structure of the complex of Cyclophilin-A enzyme from Azotobacter vinelandii with sucAFPFpNA peptide

Experimental Data Snapshot

  • Resolution: 2.00 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.201 

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This is version 1.4 of the entry. See complete history


Structure of a bacterial cytoplasmic cyclophilin A in complex with a tetrapeptide.

Christoforides, E.Dimou, M.Katinakis, P.Bethanis, K.Karpusas, M.

(2012) Acta Crystallogr Sect F Struct Biol Cryst Commun 68: 259-264

  • DOI: https://doi.org/10.1107/S1744309112000188
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Cyclophilins constitute a class of peptidyl-prolyl isomerases which participate in processes related to protein folding, signalling and chaperoning. The crystal structure of the cytoplasmic cyclophilin A (CyPA) from the bacterium Azotobacter vinelandii complexed with a synthetic tetrapeptide was determined by molecular replacement at 2 resolution. The proline in the tetrapeptide is observed to adopt the cis-isomer conformation. Comparisons of this structure with other CyPA structures provide insights into the conformational variability, effects of peptide binding and structure-function relationships of this enzyme.

  • Organizational Affiliation

    Physics Laboratory, Department of Science, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece.

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Peptidyl-prolyl cis-trans isomerase163Azotobacter vinelandii DJMutation(s): 0 
Gene Names: Avin_23510
Find proteins for C1DHE4 (Azotobacter vinelandii (strain DJ / ATCC BAA-1303))
Explore C1DHE4 
Go to UniProtKB:  C1DHE4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupC1DHE4
Sequence Annotations
  • Reference Sequence

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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
succinyl-Ala-Phe-Pro-Phe-p-nitroanilide6N/AMutation(s): 0 
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.00 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.201 
  • Space Group: P 42 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 66.41α = 90
b = 66.41β = 90
c = 71.53γ = 90
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-03-07
    Type: Initial release
  • Version 1.1: 2013-01-23
    Changes: Database references
  • Version 1.2: 2017-11-08
    Changes: Refinement description
  • Version 1.3: 2019-07-17
    Changes: Data collection, Derived calculations, Refinement description
  • Version 1.4: 2023-09-13
    Changes: Data collection, Database references, Refinement description