5HSV

X-Ray structure of a CypA-Alisporivir complex at 1.5 angstrom resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.166 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

X-ray structure of alisporivir in complex with cyclophilin A at 1.5 angstrom resolution.

Dujardin, M.Bouckaert, J.Rucktooa, P.Hanoulle, X.

(2018) Acta Crystallogr F Struct Biol Commun 74: 583-592

  • DOI: 10.1107/S2053230X18010415

  • PubMed Abstract: 
  • Alisporivir (ALV) is an 11-amino-acid hydrophobic cyclic peptide with N-methyl-D-alanine and N-ethyl-L-valine (NEV) residues at positions 3 and 4, respectively. ALV is a non-immunosuppressive cyclosporin A (CsA) derivative. This inhibitor targets cyc ...

    Alisporivir (ALV) is an 11-amino-acid hydrophobic cyclic peptide with N-methyl-D-alanine and N-ethyl-L-valine (NEV) residues at positions 3 and 4, respectively. ALV is a non-immunosuppressive cyclosporin A (CsA) derivative. This inhibitor targets cyclophilins (Cyps), a family of proteins with peptidyl-prolyl cis/trans isomerase enzymatic activity. Cyps act as protein chaperones and are involved in numerous cellular functions. Moreover, Cyps have been shown to be an essential cofactor for the replication of many viruses, including Hepatitis C virus and Human immunodeficiency virus, and have also been shown to be involved in mitochondrial diseases. For these reasons, cyclophilins represent an attractive drug target. The structure of ALV in complex with cyclophilin A (CypA), the most abundant Cyp in humans, has been determined at 1.5 Å resolution. This first structure of the CypA-ALV complex shows that the binding of ALV is highly similar to that of CsA. The high resolution allowed the unambiguous determination of the conformations of residues 3 and 4 in ALV when bound to its target. In particular, the side-chain conformation of NEV4 precludes the interaction of the CypA-ALV complex with calcineurin, a cellular protein phosphatase involved in the immune response, which explains the non-immunosuppressive property of ALV. This study provides detailed molecular insights into the CypA-ALV interaction.


    Organizational Affiliation

    UGSF-UMR8576, University of Lille, CNRS, F-59000 Lille, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Peptidyl-prolyl cis-trans isomerase A
A, B, C, D
168Chlorocebus aethiopsMutation(s): 0 
Gene Names: PPIA (CYPA)
EC: 5.2.1.8
Find proteins for P62938 (Chlorocebus aethiops)
Go to Gene View: PPIA
Go to UniProtKB:  P62938
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Alisporivir
E, F, G, H
11N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download SDF File 
Download CCD File 
A, B, C
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Modified Residues  7 Unique
IDChainsTypeFormula2D DiagramParent
ABA
Query on ABA
E, F, G, H
L-PEPTIDE LINKINGC4 H9 N O2ALA
DAM
Query on DAM
E, F, G, H
PEPTIDE LINKINGC4 H7 N O2

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MLE
Query on MLE
E, F, G, H
L-PEPTIDE LINKINGC7 H15 N O2LEU
DAL
Query on DAL
E, F, G, H
D-PEPTIDE LINKINGC3 H7 N O2

--

BMT
Query on BMT
E, F, G, H
L-PEPTIDE LINKINGC10 H19 N O3THR
MVA
Query on MVA
E, F, G, H
L-PEPTIDE LINKINGC6 H13 N O2VAL
66E
Query on 66E
E, F, G, H
L-peptide linkingC7 H15 N O2

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.166 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 37.904α = 115.12
b = 68.443β = 103.17
c = 71.952γ = 93.96
Software Package:
Software NamePurpose
PHASERphasing
PDB_EXTRACTdata extraction
REFMACrefinement
XDSdata reduction
MxCuBEdata collection
Aimlessdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
French National Research AgencyFranceANR JCJC StruFunc5A5B

Revision History 

  • Version 1.0: 2017-08-16
    Type: Initial release
  • Version 1.1: 2018-09-19
    Type: Data collection, Database references
  • Version 1.2: 2018-10-10
    Type: Data collection, Database references