3R56

Human Cyclophilin D Complexed with a Fragment

Structural Biology Knowledgebase: 3R56 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.187
  • R-Value Work: 0.158

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3R56

Classification: ISOMERASE / ISOMERASE INHIBITOR

Total Structure Weight: 18330.06

Macromolecule Entities
Molecule Chains Length Organism Details
Peptidyl-prolyl cis-trans isomerase F, mitochondrial A 166 Homo sapiens EC#: 5.2.1.8 IUBMB
Fragment: UNP residues 43-207
Mutation: K175I
Gene Name(s): PPIF Gene View CYP3
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
P33
Query on P33

A 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL
PEG330, (Synonym)
C14 H30 O8
XPJRQAIZZQMSCM-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
6AI
Query on 6AI

A 1H-indazol-6-amine
C7 H7 N3
KEJFADGISRFLFO-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.187
  • R-Value Work: 0.158
  • Space Group: P 41 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 57.03 α = 90.00
b = 57.03 β = 90.00
c = 86.99 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-03-18
  • Released Date: 2012-03-21
  • Deposition author(s): Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

Revision History

No revisions since initial release