3CMF

Crystal structure of human liver 5beta-reductase (AKR1D1) in complex with NADP and CORTISONE. Resolution 1.90 A.

Structural Biology Knowledgebase: 3CMF SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.195

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3CMF

Classification: OXIDOREDUCTASE

Total Structure Weight: 81402.89

Macromolecule Entities
Molecule Chains Length Organism Details
3-oxo-5-beta-steroid 4-dehydrogenase A, B 346 Homo sapiens EC#: 1.3.1.3 IUBMB
Gene Name(s): AKR1D1 Gene View SRD5B1

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

A, B NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE (Synonym)
C21 H28 N7 O17 P3
XJLXINKUBYWONI-NNYOXOHSSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PDN
Query on PDN

A, B 17,21-DIHYDROXYPREGNA-1,4-DIENE-3,11,20-TRIONE
11,,21-DIOL- 3 (Synonym)
C21 H26 O5
WZTZVUUYKIOIRV-LMZHSBCYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.195
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 49.72 α = 90.00
b = 109.20 β = 90.00
c = 127.84 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-03-21
  • Released Date: 2008-04-08
  • Deposition author(s): Di Costanzo, L., Drury, J., Penning, T.M., Christianson, D.W.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4