2ZZ6

Covalent complex of orotidine monophosphate decarboxylase from M. thermoautotrophicum with 6-azido-UMP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.66 Å
  • R-Value Free: 0.187
  • R-Value Work: 0.162

Literature

Macromolecules
Sequence Display for 2ZZ6

Classification: LYASE

Total Structure Weight: 55857.57

Macromolecule Entities
Molecule Chains Length Organism Details
Orotidine 5'-phosphate decarboxylase A, B 252 Methanothermobacter thermautotrophicus EC#: 4.1.1.23 IUBMB
Mutation: R101P, L226R, N227I
Gene Name(s): pyrF MTH_129
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
6AZ
Query on 6AZ

A, B 6-azidouridine 5'-(dihydrogen phosphate)
6-AZIDO-UMP (Synonym)
C9 H12 N5 O9 P
GBBWDDPNGBRVEX-YXZULKJRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
6AZ Ki: 190 - 200 nM (98) BindingDB

N/A in BindingMoad
Ki: 190 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.66 Å
  • R-Value Free: 0.187
  • R-Value Work: 0.162
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 57.93 α = 90.00
b = 73.69 β = 119.31
c = 59.15 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-02-05
  • Released Date: 2009-03-24
  • Deposition author(s): Fujihashi, M., Pai, E.F.

Revision History

  • Version 1_0: 2009-03-24

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Non-polymer description, Version format compliance