3EUB

Crystal Structure of Desulfo-Xanthine Oxidase with Xanthine

Structural Biology Knowledgebase: 3EUB SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.268
  • R-Value Work: 0.214

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3EUB

Classification: OXIDOREDUCTASE

Total Structure Weight: 551298.33

Macromolecule Entities
Molecule Chains Length Organism Details
Xanthine dehydrogenase/oxidase 2, A, J, S 165 Bos taurus EC#: 1.17.1.4 IUBMB 1.17.3.2 IUBMB
Fragment: 2Fe-2S ferredoxin-type domain, residues 1-165
Gene Name(s): XDH Gene View
Xanthine dehydrogenase/oxidase 3, B, K, T 305 Bos taurus EC#: 1.17.1.4 IUBMB 1.17.3.2 IUBMB
Fragment: AD-binding PCMH-type domain, residues 224-528
Gene Name(s): XDH Gene View
Xanthine dehydrogenase/oxidase 4, C, L, U 762 Bos taurus EC#: 1.17.1.4 IUBMB 1.17.3.2 IUBMB
Fragment: residues 571-1332
Gene Name(s): XDH Gene View

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

3, B, K, T FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
Ligand Explorer
 
JSmol
FES
Query on FES

2, A, J, S FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
MOM
Query on MOM

4, C, L, U HYDROXY(DIOXO)MOLYBDENUM
H Mo O3
WEHYDZQUOLJPRX-UHFFFAOYSA-M
Ligand Explorer
 
JSmol
MTE
Query on MTE

4, C, L, U 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
 
JSmol
XAN
Query on XAN

4, C, L, U XANTHINE
C5 H4 N4 O2
LRFVTYWOQMYALW-UHFFFAOYSA-N
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.268
  • R-Value Work: 0.214
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 73.30 α = 96.88
b = 133.18 β = 93.11
c = 142.63 γ = 90.02

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-10-09
  • Released Date: 2009-01-27
  • Deposition author(s): Pauff, J.M., Cao, H., Hille, R.

Revision History

  • 2014-09-17
    Type: Citation | Details: Citation update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4