3L0V

Crystal structure of catalytic domain of TACE with the first hydantoin inhibitor occupying the S1' pocket


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.189 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Discovery and SAR of hydantoin TACE inhibitors.

Yu, W.Guo, Z.Orth, P.Madison, V.Chen, L.Dai, C.Feltz, R.J.Girijavallabhan, V.M.Kim, S.H.Kozlowski, J.A.Lavey, B.J.Li, D.Lundell, D.Niu, X.Piwinski, J.J.Popovici-Muller, J.Rizvi, R.Rosner, K.E.Shankar, B.B.Shih, N.Y.Siddiqui, M.A.Sun, J.Tong, L.Umland, S.Wong, M.K.Yang, D.Y.Zhou, G.

(2010) Bioorg.Med.Chem.Lett. 20: 1877-1880

  • DOI: 10.1016/j.bmcl.2010.01.148
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • We disclose inhibitors of TNF-alpha converting enzyme (TACE) designed around a hydantoin zinc binding moiety. Crystal structures of inhibitors bound to TACE revealed monodentate coordination of the hydantoin to the zinc. SAR, X-ray, and modeling desi ...

    We disclose inhibitors of TNF-alpha converting enzyme (TACE) designed around a hydantoin zinc binding moiety. Crystal structures of inhibitors bound to TACE revealed monodentate coordination of the hydantoin to the zinc. SAR, X-ray, and modeling designs are described. To our knowledge, these are the first reported X-ray structures of TACE with a hydantoin zinc ligand.


    Organizational Affiliation

    Department of Medicinal Chemistry, Merck Research Laboratories, Kenilworth, NJ 07033, USA. wensheng.yu@spcorp.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Disintegrin and metalloproteinase domain-containing protein 17
A, B
270Homo sapiensMutation(s): 3 
Gene Names: ADAM17 (CSVP, TACE)
EC: 3.4.24.86
Find proteins for P78536 (Homo sapiens)
Go to Gene View: ADAM17
Go to UniProtKB:  P78536
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
724
Query on 724

Download SDF File 
Download CCD File 
A, B
(5R)-5-[(5-methoxy-3-oxo-1,3-dihydro-2H-indazol-2-yl)methyl]-5-methylimidazolidine-2,4-dione
5-[(1,3-DIHYDRO-5-METHOXY-3-OXO-2H-INDAZOL-2-YL)METHYL]-5-METHYL-2,4-IMIDAZOLIDINEDIONE
C13 H14 N4 O4
PIEMRKVLYXWKFP-CYBMUJFWSA-N
 Ligand Interaction
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
724Ki: 23 nM (98) BINDINGDB
724Ki: 23 nM BINDINGMOAD
724Ki: 23 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.189 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 72.038α = 90.00
b = 76.836β = 90.00
c = 103.798γ = 90.00
Software Package:
Software NamePurpose
BUSTERrefinement
HKL-2000data reduction
AMoREphasing
HKL-2000data scaling
CrystalCleardata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2009-12-10 
  • Released Date: 2010-03-02 
  • Deposition Author(s): Orth, P.

Revision History 

  • Version 1.0: 2010-03-02
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance