1LOQ

Crystal structure of orotidine monophosphate decarboxylase complexed with product UMP

  • Classification: Lyase
  • Deposited: 2002-05-06 Released: 2002-08-07
  • Deposition author(s): Wu, N.Pai, E.F.
  • Organism: Archaea
  • Expression System: Escherichia coli
  • Mutation(s): 3

Structural Biology Knowledgebase: 1LOQ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.198
  • R-Value Work: 0.173

Literature

Macromolecules
Sequence Display for 1LOQ

Classification: Lyase

Total Structure Weight: 25206.98

Macromolecule Entities
Molecule Chains Length Organism Details
orotidine 5'-monophosphate decarboxylase A 228 Archaea EC#: 4.1.1.23 IUBMB
Mutation: M1L, C65X, R101P
Gene Name(s): pyrF MTH_129
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A URIDINE-5'-MONOPHOSPHATE
C9 H13 N2 O9 P
DJJCXFVJDGTHFX-XVFCMESISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
U N/A in BindingDB
Ki: 200000 nM  BindingMOAD
N/A in PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
CSO
Query on CSO
A L-PEPTIDE LINKING C3 H7 N O3 S CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.198
  • R-Value Work: 0.173
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 58.32 α = 90.00
b = 103.40 β = 90.00
c = 73.93 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-05-06
  • Released Date: 2002-08-07
  • Deposition author(s): Wu, N., Pai, E.F.

Revision History

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