3OZ1

cIAP1-BIR3 domain in complex with the Smac-mimetic compound Smac066


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.192 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Recognition of Smac-mimetic compounds by the BIR3 domain of cIAP1

Cossu, F.Malvezzi, F.Canevari, G.Mastrangelo, E.Lecis, D.Delia, D.Seneci, P.Scolastico, C.Bolognesi, M.Milani, M.

(2010) Protein Sci. --: --

  • DOI: 10.1002/pro.523
  • Primary Citation of Related Structures:  3MUP

  • PubMed Abstract: 
  • Inhibitor of apoptosis proteins (IAPs) are negative regulators of apoptosis. As IAPs are overexpressed in many tumors, where they confer chemoresistance, small molecules inactivating IAPs have been proposed as anticancer agents. Accordingly, a number ...

    Inhibitor of apoptosis proteins (IAPs) are negative regulators of apoptosis. As IAPs are overexpressed in many tumors, where they confer chemoresistance, small molecules inactivating IAPs have been proposed as anticancer agents. Accordingly, a number of IAP-binding pro-apoptotic compounds that mimic the sequence corresponding to the N-terminal tetrapeptide of Smac/DIABLO, the natural endogenous IAPs inhibitor, have been developed. Here, we report the crystal structures of the BIR3 domain of cIAP1 in complex with Smac037, a Smac-mimetic known to bind potently to the XIAP-BIR3 domain and to induce degradation of cIAP1, and in complex with the novel Smac-mimetic compound Smac066. Thermal stability and fluorescence polarization assays show the stabilizing effect and the high affinity of both Smac037 and Smac066 for cIAP1- and cIAP2-BIR3 domains.


    Organizational Affiliation

    Dipartimento di Scienze Biomolecolari e Biotecnologie, Università di Milano, Via Celoria 26, I-20133, Milano, Italy.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Baculoviral IAP repeat-containing protein 2
A, B, C, D
122Homo sapiensGene Names: BIRC2 (API1, IAP2, MIHB, RNF48)
EC: 6.3.2.-
Find proteins for Q13490 (Homo sapiens)
Go to Gene View: BIRC2
Go to UniProtKB:  Q13490
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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

Download SDF File 
Download CCD File 
A, B, C, D
(3S,6S,7R,9aS)-7-[2-(benzylamino)ethyl]-N-(diphenylmethyl)-6-{[(2S)-2-(methylamino)butanoyl]amino}-5-oxooctahydro-1H-pyrrolo[1,2-a]azepine-3-carboxamide
C37 H47 N5 O3
NVNDSZWHCFDEAR-UCDLYESDSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
BMBIC50: <2 nM (99) BINDINGDB
BMBIC50: 2 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.192 
  • Space Group: C 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 113.589α = 90.00
b = 114.630β = 90.00
c = 92.962γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
DNAdata collection
BUSTERrefinement
SCALAdata scaling
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-11-24
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance