3HFR

Crystal structure of glutamate racemase from Listeria monocytogenes


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.188 

wwPDB Validation 3D Report Full Report


This is version 2.0 of the entry. See complete history


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Glutamate racemase
A, B
269Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)Mutation(s): 0 
Gene Names: murI (racE)
EC: 5.1.1.3
Find proteins for Q8Y7N7 (Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e))
Go to UniProtKB:  Q8Y7N7
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
JEF
Query on JEF

Download SDF File 
Download CCD File 
A, B
O-(O-(2-AMINOPROPYL)-O'-(2-METHOXYETHYL)POLYPROPYLENE GLYCOL 500)
JEFFAMINE
C30 H63 N O10
ICCXIDTYQFYPNV-RUMGZKRTSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A, B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

Unit Cell:
Length (Å)Angle (°)
a = 66.651α = 90.00
b = 66.651β = 90.00
c = 257.990γ = 90.00
Software Package:
Software NamePurpose
CCP4model building
Cootmodel building
HKL-2000data reduction
HKL-2000data scaling
REFMACrefinement
CCP4phasing
SHELXDphasing
HKL-3000phasing
MLPHAREphasing
ARP/wARPmodel building
SHELXEmodel building
Omodel building
DMphasing
HKL-3000data collection
DMmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2009-06-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance
  • Version 2.0: 2018-10-03
    Type: Advisory, Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary