2X3B

AsaP1 inactive mutant E294A, an extracellular toxic zinc metalloendopeptidase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.293 
  • R-Value Work: 0.244 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural Evidence of Intramolecular Propeptide Inhibition of the Aspzincin Metalloendopeptidase Asap1.

Bogdanovic, X.Palm, G.J.Schwenteit, J.Singh, R.K.Gudmundsdottir, B.K.Hinrichs, W.

(2016) FEBS Lett. 590: 3280

  • DOI: 10.1002/1873-3468.12356
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The Gram-negative bacterium Aeromonas salmonicida is a fish pathogen for various fish species worldwide. Aeromonas salmonicida subsp. achromogenes produces the extracellular, toxic zinc endopeptidase AsaP1. Crystal structure analyses at 2.0 Å resolut ...

    The Gram-negative bacterium Aeromonas salmonicida is a fish pathogen for various fish species worldwide. Aeromonas salmonicida subsp. achromogenes produces the extracellular, toxic zinc endopeptidase AsaP1. Crystal structure analyses at 2.0 Å resolution of two proteolytically inactive AsaP1 variants show the polypeptide folding of the protease domain and the propeptide domain. These first crystal structure analyses of a precursor of a deuterolysin-like aspzincin protease provide insights into propeptide function, and specific substrate binding. A lysine side chain of the propeptide binds in the hydrophobic S1'-pocket interacting with three carboxylate side chains. An AsaP1 variant with a lysine to alanine exchange identifies the chaperone function of the propeptide.


    Related Citations: 
    • The Asap1 Peptidase of Aeromonas Salmonicida Subsp. Achromogenes is a Highly Conserved Deuterolysin Metalloprotease (Family M35) and a Major Virulence Factor.
      Arnadottir, H.,Hvanndal, I.,Andresdottir, V.,Burr, S.E.,Frey, J.,Gudmundsdottir, B.K.
      (2009) J.Bacteriol. 191: 403
    • Isolation of a New Toxic Protease from a Strain of Aeromonas Salmonicida Subspecies Achromogenes
      Gudmundsdottir, B.K.,Hastingst, S.,Ellis, E.A.
      (1990) Dis.Aquat.Organ. 9: 199
    • Crystallization and Preliminary X-Ray Diffraction Studies of Asap1_E294A and Asap1_E294Q, Two Inactive Mutants of the Toxic Zinc Metallopeptidase Asap1 from Aeromonas Salmonicida Subsp. Achromogenes.
      Bogdanovic, X.,Singh, R.K.,Hentschke, J.,Gudmundsdottir, B.K.,Hinrichs, W.
      (2009) Acta Crystallogr.,Sect.F 65: 695


    Organizational Affiliation

    Department of Molecular Structural Biology, Institute for Biochemistry, University of Greifswald, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TOXIC EXTRACELLULAR ENDOPEPTIDASE
A, B
343Aeromonas salmonicida subsp. achromogenesMutation(s): 1 
Gene Names: asaP1
Find proteins for Q8GMV9 (Aeromonas salmonicida subsp. achromogenes)
Go to UniProtKB:  Q8GMV9
Small Molecules
Ligands 1 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
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.293 
  • R-Value Work: 0.244 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 57.855α = 90.00
b = 60.196β = 90.00
c = 183.612γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-02-02
    Type: Initial release
  • Version 1.1: 2016-09-21
    Type: Database references, Version format compliance
  • Version 1.2: 2016-10-12
    Type: Database references