3GRF

X-ray Structure of Ornithine Transcarbamoylase from Giardia lamblia

• PDB DOI: https://doi.org/10.2210/pdb3GRF/pdb

• Classification: TRANSFERASE
• Organism(s): Giardia intestinalis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-03-25 Released: 2009-06-30 
• Deposition Author(s): Galkin, A., Herzberg, O.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.255 
• R-Value Work: 0.197 

Starting Model: experimental

Literature

X-ray structure and kinetic properties of ornithine transcarbamoylase from the human parasite Giardia lamblia.

Galkin, A., Kulakova, L., Wu, R., Gong, M., Dunaway-Mariano, D., Herzberg, O.

(2009) Proteins 76: 1049-1053

• PubMed: 19507245 
• DOI: https://doi.org/10.1002/prot.22469
• Primary Citation of Related Structures:  
  3GRF

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Organizational Affiliation: 

W.M. Keck Laboratory for Structural Biology, Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, Maryland, USA.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 36.6 kDa 
• Atom Count: 2,628 
• Modelled Residue Count: 304 
• Deposited Residue Count: 328 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ornithine carbamoyltransferase	A	328	Giardia intestinalis	Mutation(s): 0  Gene Names: OTC EC: 2.1.3.3
UniProt
Find proteins for O76458 (Giardia intestinalis) Explore O76458  Go to UniProtKB:  O76458

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NI	B [auth A]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.255 
• R-Value Work: 0.197 
• Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.49	α = 90
b = 95.49	β = 90
c = 56.96	γ = 120

Software Package:

Software Name	Purpose
CrystalClear	data collection
PHASER	phasing
CNS	refinement
CrystalClear	data reduction
CrystalClear	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-06-30 
Deposition Author(s): Galkin, A., Herzberg, O.

Revision History  

• Version 1.0: 2009-06-30
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description