2OHV

Structural Basis for Glutamate Racemase Inhibition

Structural Biology Knowledgebase: 2OHV SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.226

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2OHV

Classification: ISOMERASE

Total Structure Weight: 29335.51

Macromolecule Entities
Molecule Chains Length Organism Details
Glutamate Racemase A 264 Streptococcus pyogenes EC#: 5.1.1.3 IUBMB
Gene Name(s): murI glr SPy_0361 M5005_Spy0303

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NHL
Query on NHL

A (4S)-4-(2-NAPHTHYLMETHYL)-D-GLUTAMIC ACID
GAMMA-2-NAPHTHYLMETHYL-D-GLUTAMIC ACID (Synonym)
C16 H17 N O4
YDWIUFASTTZKNI-UONOGXRCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
NHL N/A in BindingDB
Ki: 16 nM  BindingMOAD
IC50: 350 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.226
  • Space Group: P 32 2 1

Unit Cell:

Length (Å) Angle (°)
a = 79.75 α = 90.00
b = 79.75 β = 90.00
c = 95.70 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-01-10
  • Released Date: 2007-09-25
  • Deposition author(s): Kim, E.E.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4