1CYN

CYCLOPHILIN B COMPLEXED WITH [D-(CHOLINYLESTER)SER8]-CYCLOSPORIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Work: 0.160 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

X-Ray Structure of a Cyclophilin B/Cyclosporin Complex: Comparison with Cyclophilin a and Delineation of its Calcineurin-Binding Domain.

Mikol, V.Kallen, J.Walkinshaw, M.D.

(1994) Proc.Natl.Acad.Sci.USA 91: 5183


  • PubMed Abstract: 
  • The crystal structure of a complex between recombinant human cyclophilin B (CypB) and a cyclosporin A (CsA) analog has been determined and refined at 1.85-A resolution to a crystallographic R factor of 16.0%. The overall structures of CypB and of cyc ...

    The crystal structure of a complex between recombinant human cyclophilin B (CypB) and a cyclosporin A (CsA) analog has been determined and refined at 1.85-A resolution to a crystallographic R factor of 16.0%. The overall structures of CypB and of cyclophilin A (CypA) are similar; however, significant differences occur in two loops and at the N and C termini. The CsA-binding pocket in CypB has the same structure as in CypA and cyclosporin shows a similar bound conformation and network of interactions in both CypB and CypA complexes. The network of the water-mediated contacts is also essentially conserved. The higher potency of the CypB/CsA complex versus CypA/CsA in inhibiting the Ca(2+)- and calmodulin-dependent protein phosphatase calcineurin is discussed in terms of the structural differences between the two complexes. The three residues Arg90, Lys113, and Ala128 and the loop containing Arg158 on the surface of CypB are likely to modulate the differences in calcineurin inhibition between CypA and CypB.


    Related Citations: 
    • A Novel Secreted Cyclophilin-Like Protein (Scylp)
      Spik, G.,Haendler, B.,Delemas, O.,Mariller, C.,Chamoux, M.,Maes, P.,Tartar, A.,Montreuil, J.,Stedman, K.,Kocher, H.P.,Keller, R.,Hiestand, P.C.,Movva, R.
      (1991) J.Biol.Chem. 266: 10735
    • X-Ray Structure of a Monomeric Cyclophilin A- Cyclosporin a Crystal Complex at 2.1 A Resolution.
      Mikol, V.,Kallen, J.,Pflugl, G.,Walkinshaw, M.D.
      (1993) J.Mol.Biol. 234: 1119


    Organizational Affiliation

    Preclinical Research, Sandoz AG, Basel, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PEPTIDYL-PROLYL CIS-TRANS ISOMERASE B
A
178Homo sapiensGene Names: PPIB (CYPB)
EC: 5.2.1.8
Find proteins for P23284 (Homo sapiens)
Go to Gene View: PPIB
Go to UniProtKB:  P23284
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
CYCLOSPORIN A
C
11N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Biologically Interesting Molecules 1 Unique
IDChainsNameType/Class2D Diagram3D Interactions
PRD_000142
Query on PRD_000142
CCyclosporin ACyclic peptide / Immunosuppressant

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Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
DSN
Query on DSN
C
D-PEPTIDE LINKINGC3 H7 N O3

--

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Work: 0.160 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 37.460α = 90.00
b = 46.944β = 90.00
c = 115.442γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
X-PLORmodel building
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1996-01-29
    Type: Initial release
  • Version 1.1: 2011-06-14
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2011-07-27
    Type: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary
  • Version 1.4: 2012-12-12
    Type: Other