Biological Assembly 1  

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

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 34.59 kDa 
• Atom Count: 2701 
• Modelled Residue Count: 305 
• Deposited Residue Count: 307 
• Unique protein chains: 1

1CPX

BETA FORM OF CARBOXYPEPTIDASE A (RESIDUES 3-307) FROM BOVINE PANCREAS IN AN ORTHORHOMBIC CRYSTAL FORM WITH TWO ZINC IONS IN THE ACTIVE SITE.

• PDB DOI: 10.2210/pdb1CPX/pdb

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


• Deposited: 1998-07-27 Released: 1998-08-05 
• Deposition Author(s): Bukrinsky, J.T., Bjerrum, M.J., Kadziola, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.226 
• R-Value Work: 0.167 
• R-Value Observed: 0.167 

Literature

Native carboxypeptidase A in a new crystal environment reveals a different conformation of the important tyrosine 248.

Bukrinsky, J.T., Bjerrum, M.J., Kadziola, A.

(1998) Biochemistry 37: 16555-16564

• PubMed: 9843422 
• DOI: 10.1021/bi981678i
• Primary Citation of Related Structures:  
  1CPX


• PubMed Abstract: 
  

Native carboxypeptidase A has been crystallized in a new crystal form, and the structure has been refined with X-ray data to 2.0 A resolution. In contrast to the previously published structure [Rees, D. C., Lewis, M., and Lipscomb, W. N. (1983) J. Mol. Biol. 168, 367-387], no active-site amino acids are involved in the crystal packing. The important Tyr248 is stabilized inside the active site by a hydrogen bond and by interactions with Ile247. The proposed role of Tyr248 in the induced fit mechanism is therefore not supported by the findings in this structure of native carboxypeptidase A. The structure has a partly populated inhibitory Zn2+ site in close proximity to the catalytic Zn2+ as evident from X-ray anomalous dispersion data. A hydroxo bridge is found between the catalytic Zn2+ and the inhibitory Zn2+ with a Zn2+-Zn2+ distance of 3.48 A. In addition, the inhibitory Zn2+ has Glu270 as a monodentate ligand. No other protein ligands to the inhibitory Zn2+ are seen. The crystals were grown at 0.3 M LiCl and weak evidence for a binding site for partly competitive inhibitory anions is observed.

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Organizational Affiliation: 

Bioinorganic Group, Chemistry Department, The Royal Veterinary and Agricultural University, Copenhagen, Denmark.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (CARBOXYPEPTIDASE A)	A	307	Bos taurus	Mutation(s): 0  Gene Names: CPA1, CPA EC: 3.4.17.1
UniProt
Find proteins for P00730 (Bos taurus) Explore P00730  Go to UniProtKB:  P00730

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A], C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
OH	D [auth A]	HYDROXIDE ION H O XLYOFNOQVPJJNP-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.226 
• R-Value Work: 0.167 
• R-Value Observed: 0.167 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.79	α = 90
b = 66.85	β = 90
c = 96.02	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-07-27 
• Released Date: 1998-08-05 
Deposition Author(s): Bukrinsky, J.T., Bjerrum, M.J., Kadziola, A.

Revision History  

• Version 1.0: 1998-08-05
  Type: Initial release
  
• Version 1.1: 2007-10-16
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance