2P2C

Inhibition of caspase-2 by a designed ankyrin repeat protein (DARPin)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.24 Å
  • R-Value Free: 0.305 
  • R-Value Work: 0.262 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Inhibition of Caspase-2 by a Designed Ankyrin Repeat Protein: Specificity, Structure, and Inhibition Mechanism.

Schweizer, A.Roschitzki-Voser, H.Amstutz, P.Briand, C.Gulotti-Georgieva, M.Prenosil, E.Binz, H.K.Capitani, G.Baici, A.Pluckthun, A.Grutter, M.G.

(2007) Structure 15: 625-636

  • DOI: 10.1016/j.str.2007.03.014

  • PubMed Abstract: 
  • Specific and potent caspase inhibitors are indispensable for the dissection of the intricate pathways leading to apoptosis. We selected a designed ankyrin repeat protein (DARPin) from a combinatorial library that inhibits caspase-2 in vitro with a su ...

    Specific and potent caspase inhibitors are indispensable for the dissection of the intricate pathways leading to apoptosis. We selected a designed ankyrin repeat protein (DARPin) from a combinatorial library that inhibits caspase-2 in vitro with a subnanomolar inhibition constant and, in contrast to the peptidic caspase inhibitors, with very high specificity for this particular caspase. The crystal structure of this inhibitor (AR_F8) in complex with caspase-2 reveals the molecular basis for the specificity and, together with kinetic analyses, the allosteric mechanism of inhibition. The structure also shows a conformation of the active site that can be exploited for the design of inhibitory compounds. AR_F8 is a specific inhibitor of an initiator caspase and has the potential to help identify the function of caspase-2 in the complex biological apoptotic signaling network.


    Organizational Affiliation

    Department of Biochemistry, University of Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Caspase-2
A, C, E, G, I, K
169Homo sapiensMutation(s): 0 
Gene Names: CASP2 (ICH1, NEDD2)
EC: 3.4.22.55
Find proteins for P42575 (Homo sapiens)
Go to Gene View: CASP2
Go to UniProtKB:  P42575
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Caspase-2
B, D, F, H, J, L
106Homo sapiensMutation(s): 0 
Gene Names: CASP2 (ICH1, NEDD2)
EC: 3.4.22.55
Find proteins for P42575 (Homo sapiens)
Go to Gene View: CASP2
Go to UniProtKB:  P42575
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Caspase-2
P, Q, R, S, T, U
169N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.24 Å
  • R-Value Free: 0.305 
  • R-Value Work: 0.262 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 58.020α = 90.00
b = 229.210β = 90.11
c = 114.930γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
XDSdata reduction
CNSrefinement
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-05-22
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2018-01-24
    Type: Structure summary