1K2W

Crystal structure of sorbitol dehydrogenase from R. sphaeroides


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.188 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structure of zinc-independent sorbitol dehydrogenase from Rhodobacter sphaeroides at 2.4 A resolution.

Philippsen, A.Schirmer, T.Stein, M.A.Giffhorn, F.Stetefeld, J.

(2005) Acta Crystallogr.,Sect.D 61: 374-379

  • DOI: 10.1107/S0907444904034390

  • PubMed Abstract: 
  • Recombinant sorbitol dehydrogenase (SDH) from Rhodobacter sphaeroides has been crystallized in the absence of the cofactor NAD(H) and its structure determined to 2.4 A resolution using molecular replacement (refined R and R free factors of 18.8 and 2 ...

    Recombinant sorbitol dehydrogenase (SDH) from Rhodobacter sphaeroides has been crystallized in the absence of the cofactor NAD(H) and its structure determined to 2.4 A resolution using molecular replacement (refined R and R free factors of 18.8 and 23.8%, respectively). As expected from the sequence and shown by the conserved fold, SDH can be assigned to the short-chain dehydrogenase/reductase protein family. The cofactor NAD and the substrate sorbitol have been modelled into the structure and the active-site architecture, which displays the highly conserved catalytic tetrad of Asn-Ser-Tyr-Lys residues, is discussed in relation to the enzyme mechanism. This is the first structure of a bacterial SDH belonging to the SDR family.


    Related Citations: 
    • Polyol metabolism of Rhodobacter sphaeroides: biochemical characterization of a short-chain sorbitol dehydrogenase
      Schauder, S.,Schneider, K.H.,Giffhorn, F.
      (1995) Microbiology (Reading, Engl.) 141: 1857


    Organizational Affiliation

    Division of Structural Biology, Biozentrum, University of Basel, Klingelbergstrasse 70, 4056 Basel, Switzerland. ansgar.philippsen@unibas.ch




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SORBITOL DEHYDROGENASE
A, B
256Rhodobacter sphaeroidesGene Names: polS (smoS)
EC: 1.1.1.14
Find proteins for Q59787 (Rhodobacter sphaeroides)
Go to UniProtKB:  Q59787
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.188 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 67.465α = 90.00
b = 67.465β = 90.00
c = 191.044γ = 120.00
Software Package:
Software NamePurpose
CCP4data scaling
TRUNCATEdata reduction
MOSFLMdata reduction
AMoREphasing
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-11-11
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-25
    Type: Advisory, Author supporting evidence