3FZ6

Crystal structure of glutamate decarboxylase beta from Escherichia coli: complex with xenon

Structural Biology Knowledgebase: 3FZ6 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.82 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.135

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3FZ6

Classification: LYASE

Total Structure Weight: 318647.85

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

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

A, B, C, D, E, F 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE
PYRIDOXAMINE-5'-PHOSPHATE (Synonym)
C8 H13 N2 O5 P
ZMJGSOSNSPKHNH-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
XE
Query on XE

A, B, C, D, E, F XENON
Xe
FHNFHKCVQCLJFQ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.82 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.135
  • Space Group: P 32
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 116.73 α = 90.00
b = 116.73 β = 90.00
c = 208.42 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-01-23
  • Released Date: 2009-02-03
  • Deposition author(s): Malashkevich, V.N., De Biase, D., Bossa, F.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Refinement description | Details: Fixed TLS group
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4