1LK7

Structure of D-Ribose-5-Phosphate Isomerase from in complex with phospho-erythronic acid

Structural Biology Knowledgebase: 1LK7 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.247
  • R-Value Work: 0.202

Literature

Macromolecules
Sequence Display for 1LK7

Classification: ISOMERASE

Total Structure Weight: 102022.39

Macromolecule Entities
Molecule Chains Length Organism Details
D-Ribose-5-Phosphate Isomerase A, B, C, D 229 Pyrococcus horikoshii EC#: 5.3.1.6 IUBMB
Gene Name(s): rpiA PH1375
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D D-4-PHOSPHOERYTHRONIC ACID
C4 H9 O8 P
ZCZXOHUILRHRQJ-STHAYSLISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B, C, D CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A, C SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.247
  • R-Value Work: 0.202
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 73.69 α = 90.00
b = 114.92 β = 90.00
c = 119.58 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-04-24
  • Released Date: 2002-07-03
  • Deposition author(s): Ishikawa, K., Matsui, I., Payan, F., Cambillau, C., Ishida, H., Kawarabayasi, Y., Kikuchi, H., Roussel, A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4