2GSH

Crystal structure of L-rhamnonate dehydratase from Salmonella typhimurium


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.393 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Crystal Structure of L-rhamnonate dehydratase from Salmonella Typhimurium Lt2

Patskovsky, Y.Malashkevich, V.N.Sauder, J.M.Dickey, M.Ozyurt, S.Wasserman, S.R.Gerlt, J.Almo, S.C.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
L-RHAMNONATE DEHYDRATASE
A, B
414Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)Mutation(s): 0 
Gene Names: rhmD (yfaW)
EC: 4.2.1.90
Find proteins for Q8ZNF9 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
Go to UniProtKB:  Q8ZNF9
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.393 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.194 
  • Space Group: P 2 3
Unit Cell:
Length (Å)Angle (°)
a = 135.145α = 90.00
b = 135.145β = 90.00
c = 135.145γ = 90.00
Software Package:
Software NamePurpose
CCP4data scaling
SCALAdata scaling
REFMACrefinement
TRUNCATEdata scaling
MOLREPphasing
MOSFLMdata reduction
TRUNCATEdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2006-05-09
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Source and taxonomy, Version format compliance
  • Version 1.3: 2017-10-18
    Type: Refinement description
  • Version 1.4: 2018-11-14
    Type: Data collection, Structure summary