3L0T

Crystal structure of catalytic domain of TACE with hydantoin inhibitor

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.92 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.212 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.3 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:  
    3L0T, 3L0V

  • 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 designs are described ...

    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: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Disintegrin and metalloproteinase domain-containing protein 17A, B270Homo sapiensMutation(s): 3 
Gene Names: ADAM17, CSVP, TACE
EC: 3.4.24.86
UniProt & NIH Common Fund Data Resources
Find proteins for P78536 (Homo sapiens)
Explore P78536 
Go to UniProtKB:  P78536
PHAROS:  P78536
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP78536
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
INN
Query on INN
Download Ideal Coordinates CCD File 
D [auth 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
Z94
Query on Z94
Download Ideal Coordinates CCD File 
G [auth B]N-{4-[(4S)-2,5-dioxoimidazolidin-4-yl]phenyl}acetamide
C11 H11 N3 O3
GUTQNQMNYWTMBT-VIFPVBQESA-N		 Ligand Interaction
ZN
Query on ZN
Download Ideal Coordinates CCD File 
C [auth A],
F [auth B]		ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N		 Ligand Interaction
IPA
Query on IPA
Download Ideal Coordinates CCD File 
E [auth A],
H [auth B]		ISOPROPYL ALCOHOL
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N		 Ligand Interaction
Biologically Interesting Molecules (External Reference) 1 Unique
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.92 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.212 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 74.198α = 90
b = 75.512β = 90
c = 102.724γ = 90
Software Package:
Software NamePurpose
CrystalCleardata collection
AMoREphasing
BUSTERrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


View more in-depth experimental data
Entry History 

Deposition Data

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

Revision History  (Full details and data files)

  • Version 1.0: 2010-03-02
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2012-12-12
    Changes: Other
  • Version 1.3: 2021-10-13
    Changes: Database references, Derived calculations