1PMM

Crystal structure of Escherichia coli GadB (low pH)

Structural Biology Knowledgebase: 1PMM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.213
  • R-Value Work: 0.182

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1PMM

Classification: LYASE

Total Structure Weight: 318214.19

Macromolecule Entities
Molecule Chains Length Organism Details
Glutamate decarboxylase beta A, B, C..., D, E, FA, B, C, D, E, F 466 Escherichia coli EC#: 4.1.1.15 IUBMB
Gene Name(s): gadB b1493 JW1488
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D, E, F PYRIDOXAL-5'-PHOSPHATE
VITAMIN B6 Phosphate (Synonym)
C8 H10 N O6 P
NGVDGCNFYWLIFO-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACY
Query on ACY

A, B, C, D, E ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.213
  • R-Value Work: 0.182
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 90.78 α = 76.80
b = 91.41 β = 77.10
c = 93.69 γ = 78.24

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-06-11
  • Released Date: 2004-02-17
  • Deposition author(s): Capitani, G., De Biase, D., Aurizi, C., Gut, H., Bossa, F., Grutter, M.G.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4