1BMA

BENZYL METHYL AMINIMIDE INHIBITOR COMPLEXED TO PORCINE PANCREATIC ELASTASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Work: 0.192 
  • R-Value Observed: 0.192 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Interaction of a peptidomimetic aminimide inhibitor with elastase.

Peisach, E.Casebier, D.Gallion, S.L.Furth, P.Petsko, G.A.Hogan Jr., J.C.Ringe, D.

(1995) Science 269: 66-69

  • DOI: 10.1126/science.7604279
  • Primary Citation of Related Structures:  
    1BMA

  • PubMed Abstract: 
  • The crystal structure of an aminimide analog of a dipeptide inhibitor of porcine pancreatic elastase bound to its target serine protease has been solved. The peptidomimetic molecule binds in the same fashion as the class of dipeptides from which it w ...

    The crystal structure of an aminimide analog of a dipeptide inhibitor of porcine pancreatic elastase bound to its target serine protease has been solved. The peptidomimetic molecule binds in the same fashion as the class of dipeptides from which it was derived, making similar interactions with the subsites on the elastase surface. Because aminimides are readily synthesized from a wide variety of starting materials, they form the basis for a combinatorial chemistry approach to rational drug design.


    Related Citations: 
    • Structural Analysis of the Active Site of Porcine Pancreatic Elastase Based on the X-Ray Crystal Structures of Complexes with Trifluoroacetyl-Dipeptide-Anilide Inhibitors
      Mattos, C., Giammona, D.A., Petsko, G.A., Ringe, D.
      (1995) Biochemistry 34: 3193
    • Interaction of the Peptide Cf3-Leu-Ala-Nh-C6H4-Cf3 (Tfla) with Porcine Pancreatic Elastase. X-Ray Studies at 1.8 Angstroms
      Li De La Sierra, I., Papamichael, E., Sakarelos, C., Dimicoli, J.-L., Prange, T.
      (1990) J Mol Recognit 3: 36
    • Structure of Native Porcine Pancreatic Elastase at 1.65 Angstroms Resolution
      Meyer, E., Cole, G., Radhakrishnan, R., Epp, O.
      (1988) Acta Crystallogr B 44: 26
    • Structure of the Product Complex of Acetyl-Ala-Pro-Ala with Porcine Pancreatic Elastase at 1.65 Angstroms Resolution
      Meyer, E., Radhakrishnan, R., Cole, G., Presta, L.G.
      (1986) J Mol Biol 189: 533
    • Crystallographic Study of the Binding of a Tri-Fluoroacetyl Dipeptide Anilide Inhibitor with Elastase
      Hughes, D.L., Diecker, L.C., Bieth, L.C., Dimicoli, J.-L.
      (1982) J Mol Biol 162: 645
    • The Indirect Mechanism of Action of the Trifluoroacetyl Peptides on Elastase
      Dimicoli, J.-L., Renaud, A., Bieth, J.
      (1980) Eur J Biochem 107: 423
    • The Atomic Structure of Crystalline Porcine Pancreatic Elastase at 2.5 Angstroms Resolution. Comparisons with the Structure of Alpha-Chymotrypsin
      Sawyer, L., Shotton, C.M., Campbell, J.W., Wendell, P.L., Muirhead, H., Watson, H.C., Diamond, R., Ladner, R.C.
      (1978) J Mol Biol 118: 137

    Organizational Affiliation

    Program in Biophysics, Brandeis University, Waltham, MA 02254, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Chymotrypsin-like elastase family member 1A240Sus scrofaMutation(s): 0 
Gene Names: CELA1ELA1
EC: 3.4.21.36
Find proteins for P00772 (Sus scrofa)
Explore P00772 
Go to UniProtKB:  P00772
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
0QH
Query on 0QH

Download CCD File 
A
(1R)-1-benzyl-1-methyl-1-(2-{[4-(1-methylethyl)phenyl]amino}-2-oxoethyl)-2-{(2S)-4-methyl-2-[(trifluoroacetyl)amino]pentanoyl}diazanium
C27 H36 F3 N4 O3
HTEHUHSQPIQBEG-OHWKKVTOSA-O
 Ligand Interaction
SO4
Query on SO4

Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
CA
Query on CA

Download CCD File 
A
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
0QHKi:  26000   nM  Binding MOAD
Biologically Interesting Molecules (External Reference) 1 Unique
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Work: 0.192 
  • R-Value Observed: 0.192 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.16α = 90
b = 57.68β = 90
c = 75.52γ = 90
Software Package:
Software NamePurpose
XDSdata scaling
X-PLORmodel building
X-PLORrefinement
XDSdata reduction
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1995-12-07
    Type: Initial release
  • Version 1.1: 2008-03-03
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance
  • Version 1.3: 2012-12-12
    Changes: Other