1DBT

CRYSTAL STRUCTURE OF OROTIDINE 5'-MONOPHOSPHATE DECARBOXYLASE FROM BACILLUS SUBTILIS COMPLEXED WITH UMP

Structural Biology Knowledgebase: 1DBT SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.193

Literature

Macromolecules
Sequence Display for 1DBT

Classification: LYASE

Total Structure Weight: 79045.28

Macromolecule Entities
Molecule Chains Length Organism Details
OROTIDINE 5'-PHOSPHATE DECARBOXYLASE A, B, C 239 Bacillus subtilis EC#: 4.1.1.23 IUBMB
Gene Name(s): pyrF BSU15550
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
U5P
Query on U5P

A, B, C 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 %)
U5P N/A in BindingDB
Ki: 460000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.193
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 78.41 α = 90.00
b = 89.76 β = 90.00
c = 105.90 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-11-03
  • Released Date: 2000-03-06
  • Deposition author(s): Appleby, T.C., Kinsland, C.L., Begley, T.P., Ealick, S.E.

Revision History

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