1XEY

Crystal structure of the complex of Escherichia coli GADA with glutarate at 2.05 A resolution

Structural Biology Knowledgebase: 1XEY SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.148

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1XEY

Classification: LYASE

Total Structure Weight: 106365.66

Macromolecule Entities
Molecule Chains Length Organism Details
Glutamate decarboxylase alpha A, B 466 Escherichia coli EC#: 4.1.1.15 IUBMB
Gene Name(s): gadA gadS b3517 JW3485
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

A, B GLUTARIC ACID
C5 H8 O4
JFCQEDHGNNZCLN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.148
  • Space Group: H 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 117.10 α = 90.00
b = 117.10 β = 90.00
c = 196.40 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-09-13
  • Released Date: 2004-10-05
  • Deposition author(s): Dutyshev, D.I., Darii, E.L., Fomenkova, N.P., Pechik, I.V., Polyakov, K.M., Nikonov, S.V., Andreeva, N.S., Sukhareva, B.S.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4