3KMC

Crystal structure of catalytic domain of TACE with tartrate-based inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.224 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The discovery of novel tartrate-based TNF-alpha converting enzyme (TACE) inhibitors.

Rosner, K.E.Guo, Z.Orth, P.Shipps, G.W.Belanger, D.B.Chan, T.Y.Curran, P.J.Dai, C.Deng, Y.Girijavallabhan, V.M.Hong, L.Lavey, B.J.Lee, J.F.Li, D.Liu, Z.Popovici-Muller, J.Ting, P.C.Vaccaro, H.Wang, L.Wang, T.Yu, W.Zhou, G.Niu, X.Sun, J.Kozlowski, J.A.Lundell, D.J.Madison, V.McKittrick, B.Piwinski, J.J.Shih, N.Y.Arshad Siddiqui, M.Strickland, C.O.

(2009) Bioorg.Med.Chem.Lett. 20: 1189-1193

  • DOI: 10.1016/j.bmcl.2009.12.004
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A novel series of TNF-alpha convertase (TACE) inhibitors which are non-hydroxamate have been discovered. These compounds are bis-amides of L-tartaric acid (tartrate) and coordinate to the active site zinc in a tridentate manner. They are selective fo ...

    A novel series of TNF-alpha convertase (TACE) inhibitors which are non-hydroxamate have been discovered. These compounds are bis-amides of L-tartaric acid (tartrate) and coordinate to the active site zinc in a tridentate manner. They are selective for TACE over other MMP's. We report the first X-ray crystal structure for a tartrate-based TACE inhibitor.


    Organizational Affiliation

    Department of Medicinal Chemistry, Schering-Plough Research Institute Cambridge, 320 Bent Street, Cambridge, MA 02141, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TNF-alpha-converting enzyme
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 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
403
Query on 403

Download SDF File 
Download CCD File 
B
(2R,3R)-4-[4-(2-chlorophenyl)piperazin-1-yl]-2,3-dihydroxy-4-oxo-N-(2-thiophen-2-ylethyl)butanamide
C20 H24 Cl N3 O4 S
AZEKZZSSVLIPCQ-QZTJIDSGSA-N
 Ligand Interaction
INN
Query on INN

Download SDF File 
Download CCD File 
A
N-{(2R)-2-[2-(hydroxyamino)-2-oxoethyl]-4-methylpentanoyl}-3-methyl-L-valyl-N-(2-aminoethyl)-L-alaninamide
C19 H37 N5 O5
LMIQCBIEAHJAMZ-GZBFAFLISA-N
 Ligand Interaction
Biologically Interesting Molecules 1 Unique
IDChainsNameType/Class2D Diagram3D Interactions
PRD_000919 (INN)
Query on PRD_000919
A3,N(D,L-[2-(HYDROXYAMINO-CARBONYL)METHYL]-4-METHYL PENTANOYL)L-3-(TERT-BUTYL)GLYCYL-L-ALANINEPeptide-like / Enzyme inhibitor

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External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
403Ki: 400 nM (98) BINDINGDB
403Ki: 400 nM BINDINGMOAD
403Ki: 400 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.224 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 74.313α = 90.00
b = 76.103β = 90.00
c = 103.768γ = 90.00
Software Package:
Software NamePurpose
CrystalCleardata collection
HKL-2000data reduction
BUSTERrefinement
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2009-11-10 
  • Released Date: 2009-12-22 
  • Deposition Author(s): Orth, P.

Revision History 

  • Version 1.0: 2009-12-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Non-polymer description, Version format compliance
  • Version 1.2: 2013-02-27
    Type: Other
  • Version 1.3: 2017-11-01
    Type: Refinement description