1M63

Crystal structure of calcineurin-cyclophilin-cyclosporin shows common but distinct recognition of immunophilin-drug complexes

Structural Biology Knowledgebase: 1M63 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.322
  • R-Value Work: 0.260

Literature

Macromolecules
Sequence Display for 1M63

Classification: HYDROLASE / ISOMERASE / IMMUNOSUPPRESSANT

Total Structure Weight: 163214.44

Macromolecule Entities
Molecule Chains Length Organism Details
SERINE/THREONINE PROTEIN PHOSPHATASE 2B CATALYTIC SUBUNIT, ALPHA ISOFORM A, E 372 Homo sapiens EC#: 3.1.3.16 IUBMB
Fragment: RESIDUES 1-372
Gene Name(s): PPP3CA Gene View CALNA CNA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
CALCINEURIN B SUBUNIT ISOFORM 1 B, F 169 Homo sapiens Gene Name(s): PPP3R1 Gene View CNA2 CNB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PEPTIDYL-PROLYL CIS-TRANS ISOMERASE A C, G 165 Homo sapiens EC#: 5.2.1.8 IUBMB
Gene Name(s): PPIA Gene View CYPA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
CYCLOSPORIN A D, H 11 Tolypocladium inflatum

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ZN
Query on ZN

A, E ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FE
Query on FE

A, E FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

B, F CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000142
Query on PRD_000142
D, H Cyclosporin A Cyclic peptide /
Immunosuppressant
Ligand Explorer Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.322
  • R-Value Work: 0.260
  • Space Group: P 41 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 108.66 α = 90.00
b = 108.66 β = 90.00
c = 316.59 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-07-12
  • Released Date: 2002-09-25
  • Deposition author(s): Huai, Q., Kim, H.-Y., Liu, Y., Zhao, Y., Mondragon, A., Liu, J.O., Ke, H.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 2011-07-27
    Type: Atom nomenclature | Details: Atom nomenclature
  • 2011-07-27
    Type: Binding sites and description | Details: Binding sites and description
  • 2011-07-27
    Type: Non-polymer description | Details: Non-polymer description
  • 2011-07-27
    Type: Function and keywords | Details: Function and keywords
  • 2011-07-27
    Type: Linkage | Details: Linkage
  • 2011-07-27
    Type: Sequence database correspondence | Details: Sequence database correspondence
  • 2011-07-27
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4