2W3S Oxidoreductase date Nov 14, 2008
title Crystal Structure Of Xanthine Dehydrogenase (Desulfo Form) F Rhodobacter Capsulatus In Complex With Xanthine
authors U.Dietzel, J.Kuper, S.Leimkuhler, C.Kisker
compound source
Molecule: Xanthine Dehydrogenase
Chain: A, C, E, G
Ec: 1.1.1.204
Engineered: Yes
Organism_scientific: Rhodobacter Capsulatus
Organism_taxid: 1061
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Tp1000
Expression_system_plasmid: Psl207

Molecule: Xanthine Dehydrogenase
Chain: B, D, F, H
Ec: 1.1.1.204
Engineered: Yes

Organism_scientific: Rhodobacter Capsulatus
Organism_taxid: 1061
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Tp1000
Expression_system_plasmid: Psl207
symmetry Space Group: P 1
R_factor 0.232 R_Free 0.284
crystal
cell
length a length b length c angle alpha angle beta angle gamma
92.830 140.560 158.170 109.60 105.89 101.18
method X-Ray Diffractionresolution 2.60 Å
ligand CA, FAD, FES, MOM, MTE, XAN enzyme Oxidoreductase E.C.1.1.1.204 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, E, C, G
  • electron transfer activity


  • F, B, H, D


    Primary referenceMechanism of substrate and inhibitor binding of Rhodobacter capsulatus xanthine dehydrogenase., Dietzel U, Kuper J, Doebbler JA, Schulte A, Truglio JJ, Leimkuhler S, Kisker C, J Biol Chem. 2008 Dec 24. PMID:19109249
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (731 Kb) [Save to disk]
  • Biological Unit Coordinates (2w3s.pdb1.gz) 189 Kb
  • Biological Unit Coordinates (2w3s.pdb2.gz) 188 Kb
  • Biological Unit Coordinates (2w3s.pdb3.gz) 189 Kb
  • Biological Unit Coordinates (2w3s.pdb4.gz) 190 Kb
  • LPC: Ligand-Protein Contacts for 2W3S
  • CSU: Contacts of Structural Units for 2W3S
  • Likely Quarternary Molecular Structure file(s) for 2W3S
  • Structure Factors (3749 Kb)
  • Retrieve 2W3S in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2W3S from S2C, [Save to disk]
  • Re-refined 2w3s structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2W3S in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2W3S
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2W3S, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2w3s_H] [2w3s_F] [2w3s_D] [2w3s_A] [2w3s_B] [2w3s_G] [2w3s_E] [2w3s] [2w3s_C]
  • SWISS-PROT database: [O54050] [O54051]
  • Domain organization of [O54050_RHOCA] [O54051_RHOCA] by SWISSPFAM
  • Domains found in 2W3S: [Ald_Xan_dh_C] [CO_deh_flav_C ] by SMART
  • Other resources with information on 2W3S
  • Community annotation for 2W3S at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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