1DTH

METALLOPROTEASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Work: 0.168 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Batimastat, a potent matrix mealloproteinase inhibitor, exhibits an unexpected mode of binding.

Botos, I.Scapozza, L.Zhang, D.Liotta, L.A.Meyer, E.F.

(1996) Proc.Natl.Acad.Sci.USA 93: 2749-2754


  • PubMed Abstract: 
  • Matrix metalloproteinase enzymes have been implicated in degenerative processes like tumor cell invasion, metastasis, and arthritis. Specific metalloproteinase inhibitors have been used to block tumor cell proliferation. We have examined the interact ...

    Matrix metalloproteinase enzymes have been implicated in degenerative processes like tumor cell invasion, metastasis, and arthritis. Specific metalloproteinase inhibitors have been used to block tumor cell proliferation. We have examined the interaction of batimastat (BB-94) with a metalloproteinase [atrolysin C (Ht-d), EC 3.4.24.42] active site at 2.0-angstroms resolution (R = 16.8%). The title structure exhibits an unexpected binding geometry, with the thiophene ring deeply inserted into the primary specificity site. This unprecedented binding geometry dramatizes the significance of the cavernous primary specificity site, pointing the way for the design of a new generation of potential antitumor drugs.


    Related Citations: 
    • Structural Interaction of Natural and Synthetic Inhibitors with the Venom Metalloproteinase, Atrolysin C (Form D)
      Zhang, D.,Botos, I.,Gomis-Ruth, F.X.,Doll, R.,Blood, C.,Njoroge, F.G.,Fox, J.W.,Bode, W.,Meyer, E.F.
      (1994) Proc.Natl.Acad.Sci.USA 91: 8447


    Organizational Affiliation

    Department of Biochemistry and Biophysics, Texas A&M University, College Station, 77843, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ATROLYSIN C
A, B
203Crotalus atroxEC: 3.4.24.42
Find proteins for P15167 (Crotalus atrox)
Go to UniProtKB:  P15167
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
CA
Query on CA

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Download CCD File 
A, B
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
BAT
Query on BAT

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Download CCD File 
A, B
4-(N-HYDROXYAMINO)-2R-ISOBUTYL-2S-(2-THIENYLTHIOMETHYL)SUCCINYL-L-PHENYLALANINE-N-METHYLAMIDE
BATIMASTAT; BB94
C23 H31 N3 O4 S2
XFILPEOLDIKJHX-QYZOEREBSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
BATIC50: 6 nM BINDINGMOAD
DSXIC50: 6 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Work: 0.168 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 97.210α = 90.00
b = 97.210β = 90.00
c = 87.910γ = 120.00
Software Package:
Software NamePurpose
X-PLORrefinement
X-PLORmodel building
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-02-12
    Type: Initial release
  • Version 1.1: 2008-03-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance