1V9E | pdb_00001v9e

Crystal Structure Analysis of Bovine Carbonic Anhydrase II

• PDB DOI: https://doi.org/10.2210/pdb1V9E/pdb

• Classification: LYASE
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 2004-01-26 Released: 2004-02-10 
• Deposition Author(s): Saito, R., Sato, T., Ikai, A., Tanaka, N.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 
  0.298 (Depositor), 0.297 (DCC) 
• R-Value Work: 
  0.270 (Depositor), 0.269 (DCC) 

Literature

Structure of bovine carbonic anhydrase II at 1.95 A resolution.

Saito, R., Sato, T., Ikai, A., Tanaka, N.

(2004) Acta Crystallogr D Biol Crystallogr 60: 792-795

• PubMed: 15039588 
• DOI: https://doi.org/10.1107/S0907444904003166
• Primary Citation Related Structures: 
  1V9E


• PubMed Abstract: 
  

  Carbonic anhydrase (CA) is a zinc-containing enzyme that catalyzes the reversible hydration of CO2 to HCO3-. In eukaryotes, the enzyme plays a role in various physiological functions, including interconversion between CO2 and HCO3- in intermediary metabolism, facilitated diffusion of CO2, pH homeostasis and ion transport. The structure of bovine carbonic anhydrase II (BCA II) has been determined by molecular replacement and refined to 1.95 A resolution by simulated-annealing and individual B-factor refinement. The final R factor for the BCA II structure was 19.4%. BCA II has a C-terminal knot structure similar to that observed in human CA II. It contains one zinc ion in the active site coordinated to three histidines and one putative water molecule in a tetrahedral geometry. The structure of BCA II reveals a probable alternative proton-wire pathway that differs from that of HCA II.

---

Organizational Affiliation: 
• Department of Life Science, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, Japan.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 58.17 kDa 
• Atom Count: 4,686 
• Modeled Residue Count: 518 
• Deposited Residue Count: 518 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carbonic anhydrase II	A, B	259	Bos taurus	Mutation(s): 0  EC: 4.2.1.1 (PDB Primary Data), 4.2.1.69 (UniProt)
UniProt
Find proteins for P00921 (Bos taurus) Explore P00921  Go to UniProtKB:  P00921

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	C [auth A], D [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free:  0.298 (Depositor), 0.297 (DCC) 
• R-Value Work:  0.270 (Depositor), 0.269 (DCC) 

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.7	α = 90
b = 66.7	β = 90
c = 240	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
MOSFLM	data reduction
CCP4	data scaling
EPMR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-02-10 
Deposition Author(s): Saito, R., Sato, T., Ikai, A., Tanaka, N.

Revision History  

• Version 1.0: 2004-02-10
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Derived calculations