7PCJ

X-ray structure of CypA-C52AK125C/CsA/aromatic foldamer complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.91 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.179 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

X-ray structure of a cystein mutant of Cyclophilin A tethered to an aromatic oligoamide foldamer complexed with Cyclosporin A

Fischer, L.Savko, M.Langlois d'Estaintot, B.Buratto, J.Vallade, M.Huc, I.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Peptidyl-prolyl cis-trans isomerase AA,
C [auth D]
165Homo sapiensMutation(s): 1 
Gene Names: PPIACYPA
EC: 5.2.1.8
UniProt & NIH Common Fund Data Resources
Find proteins for P62937 (Homo sapiens)
Explore P62937 
Go to UniProtKB:  P62937
GTEx:  ENSG00000196262 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62937
Sequence Annotations
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  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Cyclosporin AB,
D [auth E]
11Tolypocladium inflatumMutation(s): 0 
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
7I7
Query on 7I7

Download Ideal Coordinates CCD File 
E [auth A],
P [auth D]
N-[2-[2-[2-(2-formamidoethoxy)ethoxy]ethoxy]ethyl]-3-sulfanyl-propanamide
C12 H24 N2 O5 S
QOVHNXIZZNSLDI-UHFFFAOYSA-N
7IB
Query on 7IB

Download Ideal Coordinates CCD File 
J [auth A],
O [auth D]
8-azanyl-5-(4-oxidanyl-4-oxidanylidene-butyl)quinoline-2-carboxylic acid
C14 H14 N2 O4
AHGXWTCIRIDJEN-UHFFFAOYSA-N
QUK
Query on QUK

Download Ideal Coordinates CCD File 
F [auth A],
I [auth A],
K [auth D],
N [auth D]
8-azanyl-4-(3-azanylpropoxy)quinoline-2-carboxylic acid
C13 H15 N3 O3
QGMHWPPZJKLYHR-UHFFFAOYSA-N
QUJ
Query on QUJ

Download Ideal Coordinates CCD File 
H [auth A],
M [auth D]
8-azanyl-4-(2-methylpropoxy)quinoline-2-carboxylic acid
C14 H16 N2 O3
UQMUZAYVJKDBFB-UHFFFAOYSA-N
QVS
Query on QVS

Download Ideal Coordinates CCD File 
G [auth A],
L [auth D]
8-azanyl-4-oxidanyl-quinoline-2-carboxylic acid
C10 H8 N2 O3
KZBXAHDVCSOKJO-UHFFFAOYSA-N
Modified Residues  5 Unique
IDChains TypeFormula2D DiagramParent
ABA
Query on ABA
B,
D [auth E]
L-PEPTIDE LINKINGC4 H9 N O2ALA
BMT
Query on BMT
B,
D [auth E]
L-PEPTIDE LINKINGC10 H19 N O3THR
MLE
Query on MLE
B,
D [auth E]
L-PEPTIDE LINKINGC7 H15 N O2LEU
MVA
Query on MVA
B,
D [auth E]
L-PEPTIDE LINKINGC6 H13 N O2VAL
SAR
Query on SAR
B,
D [auth E]
PEPTIDE LINKINGC3 H7 N O2GLY
Biologically Interesting Molecules (External Reference) 1 Unique
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.91 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.179 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 42.474α = 90
b = 70.891β = 102.7
c = 64.09γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other governmentFrance--

Revision History  (Full details and data files)

  • Version 1.0: 2022-07-13
    Type: Initial release
  • Version 1.1: 2024-01-31
    Changes: Data collection, Derived calculations, Refinement description