1E18 | pdb_00001e18

TUNGSTEN-SUSBSTITUTED DMSO REDUCTASE FROM RHODOBACTER CAPSULATUS

• PDB DOI: https://doi.org/10.2210/pdb1E18/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Rhodobacter capsulatus
• Mutation(s): No 


• Deposited: 2000-04-28 Released: 2000-06-11 
• Deposition Author(s): Bailey, S., Stewart, L.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.192 (Depositor) 
• R-Value Work: 
  0.142 (Depositor) 

Literature

Dimethylsulfoxide Reductase: An Enzyme Capable of Catalysis with Either Molybdenum or Tungsten at the Active Site

Stewart, L.J., Bailey, S., Bennett, B., Charnock, J.M., Garner, C.D., Mcalpine, A.S.

(2000) J Mol Biology 299: 593

• PubMed: 10835270 
• DOI: https://doi.org/10.1006/jmbi.2000.3702
• Primary Citation Related Structures: 
  1E18


• PubMed Abstract: 
  

  DMSO reductase (DMSOR) from Rhodobacter capsulatus, well-characterised as a molybdoenzyme, will bind tungsten. Protein crystallography has shown that tungsten in W-DMSOR is ligated by the dithiolene group of the two pyranopterins, the oxygen atom of Ser147 plus another oxygen atom, and is located in a very similar site to that of molybdenum in Mo-DMSOR. These conclusions are consistent with W L(III)-edge X-ray absorption, EPR and UV/visible spectroscopic data. W-DMSOR is significantly more active than Mo-DMSOR in catalysing the reduction of DMSO but, in contrast to the latter, shows no significant ability to catalyse the oxidation of DMS.

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Organizational Affiliation: 
• CLRC Daresbury Laboratory, Daresbury, Warrington, Cheshire, WA4 4AD, UK.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 91.4 kDa 
• Atom Count: 6,475 
• Modeled Residue Count: 779 
• Deposited Residue Count: 823 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DMSO REDUCTASE.	A	823	Rhodobacter capsulatus	Mutation(s): 0  EC: 1.7.2.3 (UniProt), 1.8.5.3 (UniProt)
UniProt
Find proteins for Q52675 (Rhodobacter capsulatus) Explore Q52675  Go to UniProtKB:  Q52675

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PGD	B [auth A], C [auth A]	2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE C20 H24 N10 O13 P2 S2 SOFMTHSWCZNJTQ-ILXWUORBSA-N
6WO	D [auth A]	OXO-TUNGSTEN(VI) O W GBHDMKYJQRTNBP-UHFFFAOYSA-N
EOH	E [auth A], F [auth A], G [auth A]	ETHANOL C2 H6 O LFQSCWFLJHTTHZ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.192 (Depositor) 
• R-Value Work:  0.142 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.92	α = 90
b = 80.92	β = 90
c = 229.78	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-06-11 
Deposition Author(s): Bailey, S., Stewart, L.J.

Revision History  

• Version 1.0: 2000-06-11
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-05-08
  Changes: Data collection, Database references, Derived calculations