6APR

STRUCTURES OF COMPLEXES OF RHIZOPUSPEPSIN WITH PEPSTATIN AND OTHER STATINE-CONTAINING INHIBITORS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Structures of complexes of rhizopuspepsin with pepstatin and other statine-containing inhibitors.

Suguna, K.Padlan, E.A.Bott, R.Boger, J.Parris, K.D.Davies, D.R.

(1992) Proteins 13: 195-205

  • DOI: 10.1002/prot.340130303
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The three-dimensional structures of the complexes of the aspartic proteinase from Rhizopus chinensis (Rhizopuspepsin, EC 3.4.23.6) with pepstatin and two pepstatin-like peptide inhibitors of renin have been determined by X-ray diffraction methods and ...

    The three-dimensional structures of the complexes of the aspartic proteinase from Rhizopus chinensis (Rhizopuspepsin, EC 3.4.23.6) with pepstatin and two pepstatin-like peptide inhibitors of renin have been determined by X-ray diffraction methods and refined by restrained least-squares procedures. The inhibitors adopt an extended conformation and lie in the deep groove located between the two domains of the enzyme. Inhibitor binding is accompanied by a conformational change at the "flap," a beta-hairpin loop region, that projects over the binding cleft and closes down over the inhibitor, excluding water molecules from the vicinity of the scissile bond. The hydroxyl group of the central statyl residue of the inhibitors replaces the water molecule found between the two active aspartates, Asp-35 and Asp-218, in the native structure. The refined structures provide additional data to define the specific subsites of the enzyme and also show a system of hydrogen bonding to the inhibitor backbone similar to that observed for a reduced inhibitor.


    Related Citations: 
    • Pepstatin Binding to Rhizopus Chinensis Aspartyl Proteinase
      Bott, R.R.,Davies, D.R.
      (1983) Peptides: Structure and Function, Proceedings of the of the Eighth American Peptide Symposium --: 531
    • 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
    • Three-Dimensional Structure of the Complex of the Rhizopus Chinensis Carboxyl Proteinase and Pepstatin at 2.5-Angstroms Resolution
      Bott, R.R.,Subramanian, E.,Davies, D.R.
      (1982) Biochemistry 21: 6956
    • The Crystal Structure of an Acid Protease from Rhizopus Chinensis at 2.5 Angstroms Resolution
      Subramanian, E.,Liu, M.,Swan, I.D.A.,Davies, D.R.
      (1977) Adv.Exp.Med.Biol. 95: 33
    • Structure and Refinement at 1.8 Angstroms Resolution of the Aspartic Proteinase from Rhizopus Chinensis
      Suguna, K.,Bott, R.R.,Padlan, E.A.,Subramanian, E.,Sheriff, S.,Cohen, G.H.,Davies, D.R.
      (1987) J.Mol.Biol. 196: 877


    Organizational Affiliation

    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20892.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
RHIZOPUSPEPSIN
E
325Rhizopus chinensisMutation(s): 0 
EC: 3.4.23.21
Find proteins for P06026 (Rhizopus chinensis)
Go to UniProtKB:  P06026
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PEPSTATIN
I
6N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Biologically Interesting Molecules 1 Unique
IDChainsNameType/Class2D Diagram3D Interactions
PRD_000557
Query on PRD_000557
IPepstatinOligopeptide / Enzyme inhibitor

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 60.330α = 90.00
b = 60.660β = 90.00
c = 107.000γ = 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: 1991-04-15
    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: 2013-02-27
    Type: Other
  • Version 1.4: 2017-11-29
    Type: Derived calculations, Other