2VYC

Crystal Structure of Acid Induced Arginine Decarboxylase from E. coli


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.177

Literature

Macromolecules
Sequence Display for 2VYC

Classification: LYASE

Total Structure Weight: 847592.06

Macromolecule Entities
Molecule Chains Length Organism Details
BIODEGRADATIVE ARGININE DECARBOXYLASE A, B, C..., D, E, F, G, H, I, JA, B, C, D, E, F, G, H, I, J 755 Escherichia coli EC#: 4.1.1.19 IUBMB
Details: COVELENT BOND BETWEEN COFACTOR PYRIDOXAL 5' PHOSPHATE (PLP) AND RESIDUE LYS386.
Gene Name(s): adiA adi b4117 JW5731
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.177
  • Space Group: P 64

Unit Cell:

Length (Å) Angle (°)
a = 197.65 α = 90.00
b = 197.65 β = 90.00
c = 450.32 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-07-22
  • Released Date: 2009-03-31
  • Deposition author(s): Andrell, J., Hicks, M.G., Palmer, T., Carpenter, E.P., Iwata, S., Maher, M.J.

Revision History

  • Version 1_0: 2009-03-31

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Advisory, Version format compliance

  • Version 1_2: 2011-10-12

    Type: Database references, Derived calculations, Other, Structure summary

  • Version 1_3: 2015-12-02

    Type: Atomic model, Data collection, Derived calculations, Non-polymer description, Other, Refinement description, Structure summary