1RCQ

The 1.45 A crystal structure of alanine racemase from a pathogenic bacterium, Pseudomonas aeruginosa, contains both internal and external aldimine forms

Structural Biology Knowledgebase: 1RCQ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.206
  • R-Value Work: 0.149

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1RCQ

Classification: ISOMERASE

Total Structure Weight: 39556.63

Macromolecule Entities
Molecule Chains Length Organism Details
catabolic alanine racemase DadX A 357 Pseudomonas aeruginosa EC#: 5.1.1.1 IUBMB
Mutation: K122X
Gene Name(s): dadX PA5302

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

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

A D-LYSINE
C6 H14 N2 O2
KDXKERNSBIXSRK-RXMQYKEDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
KCX
Query on KCX
A L-PEPTIDE LINKING C7 H14 N2 O4 LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.206
  • R-Value Work: 0.149
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 72.68 α = 90.00
b = 76.13 β = 90.00
c = 136.27 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-11-04
  • Released Date: 2004-06-01
  • Deposition author(s): Le Magueres, P., Im, H., Dvorak, A., Strych, U., Benedik, M., Krause, K.L.

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