2D0U

Crystal structure of cyanide bound form of human indoleamine 2,3-dioxygenase

Structural Biology Knowledgebase: 2D0U SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.4 Å
  • R-Value Free: 0.254
  • R-Value Work: 0.213

Literature

Macromolecules
Sequence Display for 2D0U

Classification: Oxidoreductase

Total Structure Weight: 93447.98

Macromolecule Entities
Molecule Chains Length Organism Details
Indoleamine 2,3-dioxygenase A, B 406 Homo sapiens EC#: 1.13.11.52 IUBMB
Gene Name(s): IDO1 Gene View IDO INDO
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NHE
Query on NHE

A, B 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID
N-CYCLOHEXYLTAURINE; CHES (Synonym)
C8 H17 N O3 S
MKWKNSIESPFAQN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CYN
Query on CYN

A, B CYANIDE ION
C N
XFXPMWWXUTWYJX-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.4 Å
  • R-Value Free: 0.254
  • R-Value Work: 0.213
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 86.35 α = 90.00
b = 97.09 β = 90.00
c = 129.38 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-08-08
  • Released Date: 2006-01-31
  • Deposition author(s): Sugimoto, H., Oda, S., Otsuki, T., Hino, T., Yoshida, T., Shiro, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History

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