3T1U

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.201 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

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 68: 259-264

  • DOI: 10.1107/S1744309112000188

  • 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 vineland ...

    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.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Peptidyl-prolyl cis-trans isomerase
A
163Azotobacter vinelandii (strain DJ / ATCC BAA-1303)EC: 5.2.1.8
Find proteins for C1DHE4 (Azotobacter vinelandii (strain DJ / ATCC BAA-1303))
Go to UniProtKB:  C1DHE4
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
succinyl-Ala-Phe-Pro-Phe-p-nitroanilide
B
6N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
SIN
Query on SIN
B
NON-POLYMERC4 H6 O4

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NIT
Query on NIT
B
NON-POLYMERC6 H6 N2 O2

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.201 
  • Space Group: P 42 21 2
Unit Cell:
Length (Å)Angle (°)
a = 66.410α = 90.00
b = 66.410β = 90.00
c = 71.530γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
DENZOdata reduction
CNSrefinement
SCALEPACKdata scaling
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-03-07
    Type: Initial release
  • Version 1.1: 2013-01-23
    Type: Database references
  • Version 1.2: 2017-11-08
    Type: Refinement description