1FB5

LOW RESOLUTION STRUCTURE OF OVINE ORNITHINE TRANSCARBMOYLASE IN THE UNLIGANDED STATE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.212 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Functional and structural characterization of ovine ornithine transcarbamoylase.

De Gregorio, A.Battistutta, R.Arena, N.Panzalorto, M.Francescato, P.Valentini, G.Bruno, G.Zanotti, G.

(2003) Org.Biomol.Chem. 1: 3178-3185


  • PubMed Abstract: 
  • Ornithine transcarbamoylase from ovine liver has been purified to homogeneity. Like all anabolic OTCs, the ovine enzyme is a trimer, constituted by identical subunits of 34 kDa. Sequence analysis of the 54 N-terminal residues of ovine OTC shows a hig ...

    Ornithine transcarbamoylase from ovine liver has been purified to homogeneity. Like all anabolic OTCs, the ovine enzyme is a trimer, constituted by identical subunits of 34 kDa. Sequence analysis of the 54 N-terminal residues of ovine OTC shows a high degree of homology with the human enzyme. The optimum pH and the Michaelis constants for the catalytic reaction were determined. The ovine enzyme is the most thermostable one among mammals OTCs, its critical temperature being 6 degrees C higher than those measured for the other enzymes. The enzyme has been crystallised and the structure determined at 3.5 A resolution. Crystals belong to the cubic P4(3)32 space group, with a = b = c = 184.7 A and a solvent content of about 80%. There is no evidence of any ligand in the active site cavity, indicating that the crystals contain an unliganded or T state of the enzyme. The unliganded OTCase enzyme adopts a trimeric structure which, in the crystal, presents a three-fold axis coincident with the crystallographic one. The conformation of each monomer in the trimer is quite similar to that of the liganded human protein, with the exception of a few loops, directly interacting with the substrate(s), which are able to induce a rearrangement of the quaternary organisation of the trimer, that accounts for the cooperative behaviour of the enzyme following the binding of the substrates.


    Related Citations: 
    • Substrate-induced Conformational Change in a Trimeric Ornithine Transcarbamoylase
      Ha, Y.,McCann, M.T.,Tuchman, M.,Allewell, N.M.
      (1997) Proc.Natl.Acad.Sci.USA 94: 9550
    • 1.85 A Resolution Crystal Structure of Human Ornithine Transcarbamoylase Complexed with N-phopshonacetyl-L-ornithine. Catalytic Mechanism and Correlation with Inherited Deficiency.
      Shi, D.,Morizono, H.,Ha, Y.,Aoyagi, M.,Tuchman, M.,Allewell, N.M.
      (1998) J.Biol.Chem. 273: 34247


    Organizational Affiliation

    Department of Organic and Biological Chemistry, University of Messina, Salita Sperone 31, 98166 Messina, Italy.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ORNITHINE TRANSCARBAMOYLASE
A
320Ovis ariesGene Names: OTC
EC: 2.1.3.3
Find proteins for P84010 (Ovis aries)
Go to Gene View: OTC
Go to UniProtKB:  P84010
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NVA
Query on NVA

Download SDF File 
Download CCD File 
A
NORVALINE
C5 H11 N O2
SNDPXSYFESPGGJ-BYPYZUCNSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.212 
  • Space Group: P 43 3 2
Unit Cell:
Length (Å)Angle (°)
a = 184.700α = 90.00
b = 184.700β = 90.00
c = 184.700γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
MOSFLMdata reduction
CNSrefinement
SCALAdata scaling
CCP4data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-08-26
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance