4DF0

Crystal structure of orotidine 5'-monophosphate decarboxylase from Thermoproteus neutrophilus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of orotidine 5'-monophosphate decarboxylase from Thermoproteus neutrophilus

Fedorov, A.A.Fedorov, E.V.Desai, B.Gerlt, J.A.Almo, S.C.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Orotidine 5'-phosphate decarboxylase
A, B
202Pyrobaculum neutrophilum (strain DSM 2338 / JCM 9278 / V24Sta)N/A
Find proteins for B1Y9Q9 (Pyrobaculum neutrophilum (strain DSM 2338 / JCM 9278 / V24Sta))
Go to UniProtKB:  B1Y9Q9
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
NI
Query on NI

Download SDF File 
Download CCD File 
A, B
NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.205 
  • Space Group: I 41 3 2
Unit Cell:
Length (Å)Angle (°)
a = 171.610α = 90.00
b = 171.610β = 90.00
c = 171.610γ = 90.00
Software Package:
Software NamePurpose
HKL-3000data scaling
PHENIXmodel building
CBASSdata collection
PHENIXrefinement
HKL-2000data reduction
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-01-23
    Type: Initial release