3GTA

Structure of an ML-IAP/XIAP chimera bound to a peptidomimetic


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.169 
  • R-Value Work: 0.152 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Antagonists of inhibitor of apoptosis proteins based on thiazole amide isosteres.

Cohen, F.Koehler, M.F.Bergeron, P.Elliott, L.O.Flygare, J.A.Franklin, M.C.Gazzard, L.Keteltas, S.F.Lau, K.Ly, C.Q.Tsui, V.Fairbrother, W.J.

(2010) Bioorg.Med.Chem.Lett. 20: 2229-2233

  • DOI: 10.1016/j.bmcl.2010.02.021
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A series of IAP antagonists based on thiazole or benzothiazole amide isosteres was designed and synthesized. These compounds were tested for binding to the XIAP-BIR3 and ML-IAP BIR using a fluorescence polarization assay. The most potent of these com ...

    A series of IAP antagonists based on thiazole or benzothiazole amide isosteres was designed and synthesized. These compounds were tested for binding to the XIAP-BIR3 and ML-IAP BIR using a fluorescence polarization assay. The most potent of these compounds, 19a and 33b, were found to have K(i)'s of 20-30 nM against ML-IAP and 50-60 nM against XIAP-BIR3.


    Related Citations: 
    • Structure and function analysis of peptide antagonists of melanoma inhibitor of apoptosis (ML-IAP).
      Franklin, M.C.,Kadkhodayan, S.,Ackerly, H.,Alexandru, D.,Distefano, M.D.,Elliott, L.O.,Flygare, J.A.,Vucic, D.,Deshayes, K.,Fairbrother, W.J.
      (2003) Biochemistry 42: 8223
    • Design, synthesis, and biological activity of a potent SMAC mimetic that sensitizes concer cells to apoptosis by antagonizing IAPs.
      Zobel, K.,Wang, L.,Varfolomeev, E.,Franklin, M.C.,Elliott, L.O.,Wallweber, H.J.,Okawa, D.C.,Flygare, J.A.,Vucic, D.,Fairbrother, W.J.,Deshayes, K.
      (2006) ACS CHEM.BIOL. 1: 525
    • Engineering ML-IAP to produce an extrordinarily potent caspase-9 inhibitor: implications for SMAC-dependent anti-apoptotic activity of ML-IAP
      Vucic, D.,Franklin, M.C.,Wallweber, H.J.,Das, K.,Eckelman, B.P.,Shin, H.,Elliott, L.O.,Deshayes, K.,Salvesen, G.S.,Fairbrother, W.J.
      (2005) BIOCHEM.J. 385: 11
    • Orally bioavailable antagonists of inhibitor of apoptosis proteins based on an azabicyclooctane scaffold
      Cohen, F.,Alicke, B.,Elliott, L.O.,Flygare, J.A.,Goncharov, T.,Keteltas, S.F.,Franklin, M.C.,Frankovitz, S.,Stephan, J.P.,Tsui, V.,Vucic, D.,Wong, H.,Fairbrother, W.J.
      (2009) J.Med.Chem. 52: 1723


    Organizational Affiliation

    Department of Discovery Chemistry, Genentech, Inc. 1 DNA Way, South San Francisco, CA 94080, USA. fcohen@gene.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Baculoviral IAP repeat-containing 7
A, B
133Homo sapiensMutation(s): 11 
Gene Names: BIRC7 (KIAP, LIVIN, MLIAP, RNF50)
EC: 2.3.2.27
Find proteins for Q96CA5 (Homo sapiens)
Go to Gene View: BIRC7
Go to UniProtKB:  Q96CA5
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
851
Query on 851

Download SDF File 
Download CCD File 
A, B
N-{(1S)-1-cyclohexyl-2-oxo-2-[(2S)-2-(4-phenyl-1,3-benzothiazol-2-yl)pyrrolidin-1-yl]ethyl}-N~2~-methyl-L-alaninamide
C29 H36 N4 O2 S
ZMBDQSBUBMMIRB-QXWFJRNPSA-N
 Ligand Interaction
ZN
Query on ZN

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

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Download CCD File 
B
LITHIUM ION
Li
HBBGRARXTFLTSG-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download SDF File 
Download CCD File 
B
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
BTB
Query on BTB

Download SDF File 
Download CCD File 
B
2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
BIS-TRIS BUFFER
C8 H19 N O5
OWMVSZAMULFTJU-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
851Ki: 53000 nM (90) BINDINGDB
851Ki: 53000 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.169 
  • R-Value Work: 0.152 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 87.480α = 90.00
b = 87.480β = 90.00
c = 74.027γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data scaling
REFMACrefinement
ADSCdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-03-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance
  • Version 1.2: 2017-11-01
    Type: Refinement description