2ER6

The structure of a synthetic pepsin inhibitor complexed with endothiapepsin.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Work: 0.200 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

The structure of a synthetic pepsin inhibitor complexed with endothiapepsin

Cooper, J.Foundling, S.Hemmings, A.Blundell, T.Jones, D.M.Hallett, A.Szelke, M.

(1987) Eur.J.Biochem. 169: 215-221


  • PubMed Abstract: 
  • The conformation of a synthetic polypeptide inhibitor, bound to the active site of the fungal aspartic proteinase endothiapepsin (EC 3.4.23.6), has been determined by X-ray diffraction at 0.20-nm resolution and refined to an agreement factor of 0.20. ...

    The conformation of a synthetic polypeptide inhibitor, bound to the active site of the fungal aspartic proteinase endothiapepsin (EC 3.4.23.6), has been determined by X-ray diffraction at 0.20-nm resolution and refined to an agreement factor of 0.20. The inhibitor: Pro Thr Glu Phe-R-Phe Arg Glu (R = -CH2NH-) is based on a chromogenic substrate of pepsin (EC 3.4.23.1). It has, in place of the scissile bond, a reduced peptide group which is resistant to hydrolysis and mimics the tetrahedral transition state. The inhibitor binds in an extended conformation with the reduced bond close to the essential aspartate side-chains of the enzyme. The hydrogen bonds and hydrophobic interactions between the enzyme and the inhibitor do not induce large conformational changes.


    Related Citations: 
    • The Three-Dimensional Structure of Acid Proteinases
      Blundell, T.L.,Jenkins, J.A.,Khan, G.,Roychowdhury, P.,Sewell, T.,Tickle, I.J.,Wood, E.A.
      (1979) Proc.FEBS Meet. 52: 81
    • Four-Fold Structural Repeat in the Acid Proteases
      Blundell, T.L.,Sewell, B.T.,Mclachlan, A.D.
      (1979) Biochim.Biophys.Acta 580: 24
    • Homology Among Acid Proteases. Comparison of Crystal Structures at 3 Angstroms Resolution of Acid Proteases from Rhizopus Chinensis and Endothia Parasitica
      Subramanian, E.,Swan, I.D.A.,Liu, M.,Davies, D.R.,Jenkins, J.A.,Tickle, I.J.,Blundell, T.L.
      (1977) Proc.Natl.Acad.Sci.USA 74: 556
    • Structural Evidence for Gene Duplication in the Evolution of Acid Proteases
      Tang, J.,James, M.N.G.,Hsu, I.N.,Jenkins, J.A.,Blundell, T.L.
      (1978) Nature 271: 618
    • X-Ray Analysis and Circular Dichroism of the Acid Protease from Endothia Parasitica and Chymosin
      Jenkins, J.,Tickle, I.,Sewell, T.,Ungaretti, L.,Wollmer, A.,Blundell, T.
      (1977) Adv.Exp.Med.Biol. 95: 43
    • The Active Site of Aspartic Proteinases
      Pearl, L.,Blundell, T.
      (1984) FEBS Lett. 174: 96
    • Active Site of Acid Proteinases
      Blundell, T.L.,Jones, H.B.,Khan, G.,Taylor, G.,Sewell, T.S.,Pearl, L.H.,Wood, S.P.
      (1979) Proc.FEBS Meet. 60: 281


    Organizational Affiliation

    Department of Crystallography, Birkbeck College, London, England.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ENDOTHIAPEPSIN
E
330Cryphonectria parasiticaMutation(s): 0 
Gene Names: EAPA (EPN-1)
EC: 3.4.23.22
Find proteins for P11838 (Cryphonectria parasitica)
Go to UniProtKB:  P11838
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
H-256 peptide
I
6N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Work: 0.200 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 53.400α = 90.00
b = 73.800β = 109.50
c = 45.600γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1991-01-15
    Type: Initial release
  • Version 1.1: 2008-03-03
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance
  • Version 1.3: 2012-12-12
    Type: Other
  • Version 1.4: 2017-11-29
    Type: Derived calculations, Other