3VER

Crystal structure of the O-carbamoyltransferase TobZ in complex with carbamoyl adenylate intermediate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.34 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.169 
  • R-Value Observed: 0.172 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The O-Carbamoyltransferase TobZ Catalyzes an Ancient Enzymatic Reaction.

Parthier, C.Gorlich, S.Jaenecke, F.Breithaupt, C.Brauer, U.Fandrich, U.Clausnitzer, D.Wehmeier, U.F.Bottcher, C.Scheel, D.Stubbs, M.T.

(2012) Angew Chem Int Ed Engl 51: 4046-4052


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
O-carbamoyltransferase TobZA576Streptoalloteichus tenebrariusMutation(s): 0 
Gene Names: tacAtobZ
EC: 2.1.3 (PDB Primary Data), 6.1.2.2 (UniProt)
Find proteins for Q70IY1 (Streptoalloteichus tenebrarius (strain ATCC 17920 / DSM 40477 / NCIB 11028))
Explore Q70IY1 
Go to UniProtKB:  Q70IY1
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA0
Query on CA0

Download CCD File 
A
5'-O-[(S)-(carbamoyloxy)(hydroxy)phosphoryl]adenosine
C11 H15 N6 O8 P
CHSNPOFVFYPELH-KQYNXXCUSA-N
 Ligand Interaction
FE2
Query on FE2

Download CCD File 
A
FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
 Ligand Interaction
NA
Query on NA

Download CCD File 
A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.34 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.169 
  • R-Value Observed: 0.172 
  • Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 99.262α = 90
b = 99.262β = 90
c = 281.323γ = 120
Software Package:
Software NamePurpose
XSCALEdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
MAR345data collection
XDSdata reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-01-25
    Type: Initial release
  • Version 1.1: 2012-03-14
    Changes: Database references
  • Version 1.2: 2012-05-02
    Changes: Database references
  • Version 1.3: 2017-11-15
    Changes: Refinement description