Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 102.37 kDa 
• Atom Count: 7245 
• Modelled Residue Count: 942 
• Deposited Residue Count: 942 
• Unique protein chains: 1

1TBH

H141D mutant of rat liver arginase I

• PDB DOI: 10.2210/pdb1TBH/pdb

• Classification: HYDROLASE
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2004-05-20 Released: 2005-08-16 
• Deposition Author(s): Cama, E., Cox, J.D., Ash, D.E., Christianson, D.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.296 
• R-Value Work: 0.266 
• R-Value Observed: 0.266 

Literature

Probing the role of the hyper-reactive histidine residue of arginase.

Colleluori, D.M., Reczkowski, R.S., Emig, F.A., Cama, E., Cox, J.D., Scolnick, L.R., Compher, K., Jude, K., Han, S., Viola, R.E., Christianson, D.W., Ash, D.E.

(2005) Arch Biochem Biophys 444: 15-26

• PubMed: 16266687 
• DOI: 10.1016/j.abb.2005.09.009
• Primary Citation of Related Structures:  
  1TA1, 1TBH, 1TBJ, 1TBL, 1ZPE, 1ZPG


• PubMed Abstract: 
  

Rat liver arginase (arginase I) is potently inactivated by diethyl pyrocarbonate, with a second-order rate constant of 113M(-1)s(-1) for the inactivation process at pH 7.0, 25 degrees C. Partial protection from inactivation is provided by the product of the reaction, l-ornithine, while nearly complete protection is afforded by the inhibitor pair, l-ornithine and borate. The role of H141 has been probed by mutagenesis, chemical modulation, and X-ray diffraction. The hyper-reactivity of H141 towards diethyl pyrocarbonate can be explained by its proximity to E277. A proton shuttling role for H141 is supported by its conformational mobility observed among the known arginase structures. H141 is proposed to serve as an acid/base catalyst, deprotonating the metal-bridging water molecule to generate the metal-bridging hydroxide nucleophile, and by protonating the amino group of the product to facilitate its departure.

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Organizational Affiliation: 

Department of Biochemistry, Temple University School of Medicine, Philadelphia, PA 19140, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Arginase 1	A, B, C	314	Rattus norvegicus	Mutation(s): 1  Gene Names: Arg1 EC: 3.5.3.1
UniProt
Find proteins for P07824 (Rattus norvegicus) Explore P07824  Go to UniProtKB:  P07824

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MN	D [auth A], E [auth A], F [auth B], G [auth B], H [auth C], I [auth C]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.296 
• R-Value Work: 0.266 
• R-Value Observed: 0.266 
• Space Group: P 3₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.18	α = 90
b = 88.18	β = 90
c = 103.42	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
MOSFLM	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-05-20 
• Released Date: 2005-08-16 
Deposition Author(s): Cama, E., Cox, J.D., Ash, D.E., Christianson, D.W.

Revision History  

• Version 1.0: 2005-08-16
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2021-10-27
  Changes: Database references, Derived calculations