2V77

Crystal Structure of Human Carboxypeptidase A1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.603 Å
  • R-Value Free: 0.192 
  • R-Value Work: 0.178 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Direct interaction between a human digestive protease and the mucoadhesive poly(acrylic acid).

Pallares, I.Fernandez, D.Comellas-Bigler, M.Fernandez-Recio, J.Ventura, S.Aviles, F.X.Bode, W.Vendrell, J.

(2008) Acta Crystallogr. D Biol. Crystallogr. D64: 784-791

  • DOI: 10.1107/S0907444908013474

  • PubMed Abstract: 
  • Carboxypeptidase A1 has been the subject of extensive research in the last 30 y and is one of the most widely studied zinc metalloenzymes. However, the three-dimensional structure of the human form of the enzyme is not yet available. This report desc ...

    Carboxypeptidase A1 has been the subject of extensive research in the last 30 y and is one of the most widely studied zinc metalloenzymes. However, the three-dimensional structure of the human form of the enzyme is not yet available. This report describes the three-dimensional structure of human carboxypeptidase A1 (hCPA1) derived from crystals that belong to the tetragonal space group P4(3)2(1)2 and diffract to 1.6 angstroms resolution. A description of the ternary complex hCPA1-Zn2+-poly(acrylic acid) is included as a model of the interaction of mucoadhesive polymers with proteases in the gastrointestinal tract. The direct mode of interaction between poly(acrylic acid) and the active site of the target protease was confirmed by in vitro inhibition assays. The structure was further analyzed in silico through the optimal docking-area method. The characterization of binding sites on the surface of hCPA1 and a comparison with other available carboxypeptidase structures provided further insights into the formation of multiprotein complexes and the activation mechanisms of carboxypeptidase zymogens. The high-resolution structure of hCPA1 provides an excellent template for the modelling of physiologically relevant carboxypeptidases and could also contribute to the design of specific agents for biomedical purposes.


    Organizational Affiliation

    Departament de Bioquímica i Biologia Molecular, Facultat de Biociències and Institut de Biotecnologia i de Biomedicina, Universitat Autònoma de Barcelona, E-08193 Bellaterra, Spain.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CARBOXYPEPTIDASE A1
A, B
309Homo sapiensMutation(s): 0 
Gene Names: CPA1 (CPA)
EC: 3.4.17.1
Find proteins for P15085 (Homo sapiens)
Go to Gene View: CPA1
Go to UniProtKB:  P15085
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EPE
Query on EPE

Download SDF File 
Download CCD File 
A, B
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
HEPES
C8 H18 N2 O4 S
JKMHFZQWWAIEOD-UHFFFAOYSA-N
 Ligand Interaction
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
PAY
Query on PAY

Download SDF File 
Download CCD File 
A, B
OCTANE-1,3,5,7-TETRACARBOXYLIC ACID
(3R,5R,7S)-OCTANE-1,3,5,7-TETRACARBOXYLIC ACID
C12 H18 O8
UEYGDIASMOPQFG-XLPZGREQSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
PAYKi: 8700 nM BINDINGMOAD
PAAKi: 8700 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.603 Å
  • R-Value Free: 0.192 
  • R-Value Work: 0.178 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 129.565α = 90.00
b = 129.565β = 90.00
c = 90.856γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
DENZOdata reduction
CNSrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-07-01
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-07-19
    Type: Database references