3COT

Crystal structure of human liver delta(4)-3-ketosteroid 5beta-reductase (akr1d1) in complex with progesterone and nadp. Resolution: 2.03 A.

Structural Biology Knowledgebase: 3COT SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.194

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3COT

Classification: OXIDOREDUCTASE

Total Structure Weight: 81314.96

Macromolecule Entities
Molecule Chains Length Organism Details
3-oxo-5-beta-steroid 4-dehydrogenase A, B 346 Homo sapiens EC#: 1.13.11.54 IUBMB 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
 
JSmol
STR
Query on STR

A, B PROGESTERONE
C21 H30 O2
RJKFOVLPORLFTN-LEKSSAKUSA-N
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.194
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 49.74 α = 90.00
b = 109.43 β = 90.00
c = 128.58 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-03-29
  • 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