1N5X

Xanthine Dehydrogenase from Bovine Milk with Inhibitor TEI-6720 Bound

Structural Biology Knowledgebase: 1N5X SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.275
  • R-Value Work: 0.244

Literature

Macromolecules
Sequence Display for 1N5X

Classification: OXIDOREDUCTASE

Total Structure Weight: 297745.59

Macromolecule Entities
Molecule Chains Length Organism Details
Xanthine Dehydrogenase A, B 1331 Bos taurus EC#: 1.17.1.4 IUBMB
Gene Name(s): XDH Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FAD
Query on FAD

A, B FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MTE
Query on MTE

A, B PHOSPHONIC ACIDMONO-(2-AMINO-5,6-DIMERCAPTO- 4-OXO-3,7,8A,9,10,10A-HEXAHYDRO-4H-8-OXA- 1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL)ESTER
C10 H14 N5 O6 P S2
HPEUEJRPDGMIMY-IFQPEPLCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
TEI
Query on TEI

A, B 2-(3-CYANO-4-ISOBUTOXY-PHENYL)-4-METHYL-5- THIAZOLE-CARBOXYLIC ACID
C16 H16 N2 O3 S
BQSJTQLCZDPROO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FES
Query on FES

A, B FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MOS
Query on MOS

A, B DIOXOTHIOMOLYBDENUM(VI) ION
H Mo O2 S
BDSRWPHSAKXXRG-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
TEI IC50: 1.3 - 30 nM (86 - 100) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.275
  • R-Value Work: 0.244
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 168.27 α = 90.00
b = 124.66 β = 90.99
c = 147.32 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-11-07
  • Released Date: 2003-03-18
  • Deposition author(s): Okamoto, K., Eger, B.T., Nishino, T., Kondo, S., Pai, E.F., Nishino, T.

Revision History

  • 2013-05-08
    Type: Other | Details: add flag 1 to MTRIX records
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4