1ZLI

Crystal structure of the tick carboxypeptidase inhibitor in complex with human carboxypeptidase B


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.157 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The Three-Dimensional Structures of Tick Carboxypeptidase Inhibitor in Complex with A/B Carboxypeptidases Reveal a Novel Double-headed Binding Mode

Arolas, J.L.Popowicz, G.M.Lorenzo, J.Sommerhoff, C.P.Huber, R.Aviles, F.X.Holak, T.A.

(2005) J.Mol.Biol. 350: 489-498

  • DOI: 10.1016/j.jmb.2005.05.015
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The tick carboxypeptidase inhibitor (TCI) is a proteinaceous inhibitor of metallo-carboxypeptidases present in the blood-sucking tick Rhipicephalus bursa. The three-dimensional crystal structures of recombinant TCI bound to bovine carboxypeptidase A ...

    The tick carboxypeptidase inhibitor (TCI) is a proteinaceous inhibitor of metallo-carboxypeptidases present in the blood-sucking tick Rhipicephalus bursa. The three-dimensional crystal structures of recombinant TCI bound to bovine carboxypeptidase A and to human carboxypeptidase B have been determined and refined at 1.7 A and at 2.0 A resolution, respectively. TCI consists of two domains that are structurally similar despite the low degree of sequence homology. The domains, each consisting of a short alpha-helix followed by a small twisted antiparallel beta-sheet, show a high level of structural homology to proteins of the beta-defensin-fold family. TCI anchors to the surface of mammalian carboxypeptidases in a double-headed manner not previously seen for carboxypeptidase inhibitors: the last three carboxy-terminal amino acid residues interact with the active site of the enzyme in a way that mimics substrate binding, and the N-terminal domain binds to an exosite distinct from the active-site groove. The structures of these complexes should prove valuable in the applications of TCI as a thrombolytic drug and as a basis for the design of novel bivalent carboxypeptidase inhibitors.


    Related Citations: 
    • A carboxypeptidase inhibitor from the tick Rhipicephalus bursa: isolation, cDNA cloning, recombinant expression, and characterization
      Arolas, J.L.,Lorenzo, J.,Rovira, A.,Castella, J.,Aviles, F.X.,Sommerhoff, C.P.
      (2005) J.Biol.Chem. 280: 3441


    Organizational Affiliation

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




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Carboxypeptidase B
A
309Homo sapiensMutation(s): 0 
Gene Names: CPB1 (CPB, PCPB)
EC: 3.4.17.2
Find proteins for P15086 (Homo sapiens)
Go to Gene View: CPB1
Go to UniProtKB:  P15086
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
carboxypeptidase inhibitor
B
75Rhipicephalus bursaMutation(s): 0 
Find proteins for Q5EPH2 (Rhipicephalus bursa)
Go to UniProtKB:  Q5EPH2
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.157 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 74.200α = 90.00
b = 74.200β = 90.00
c = 163.550γ = 90.00
Software Package:
Software NamePurpose
MADNESSdata reduction
MOLREPphasing
XDSdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-07-05
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-11
    Type: Refinement description