1PXV

The staphostatin-staphopain complex: a forward binding inhibitor in complex with its target cysteine protease


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The Staphostatin-Staphopain Complex: A FORWARD BINDING INHIBITOR IN COMPLEX WITH ITS TARGET CYSTEINE PROTEASE.

Filipek, R.Rzychon, M.Oleksy, A.Gruca, M.Dubin, A.Potempa, J.Bochtler, M.

(2003) J.Biol.Chem. 278: 40959-40966

  • DOI: 10.1074/jbc.M302926200

  • PubMed Abstract: 
  • Staphostatins are the endogenous inhibitors of the major secreted cysteine proteases of Staphylococcus aureus, the staphopains. Our recent crystal structure of staphostatin B has shown that this inhibitor forms a mixed, eight-stranded beta-barrel wit ...

    Staphostatins are the endogenous inhibitors of the major secreted cysteine proteases of Staphylococcus aureus, the staphopains. Our recent crystal structure of staphostatin B has shown that this inhibitor forms a mixed, eight-stranded beta-barrel with statistically significant similarity to lipocalins, but not to cystatins. We now present the 1.8-A crystal structure of staphostatin B in complex with an inactive mutant of its target protease. The complex is held together through extensive interactions and buries a total surface area of 2300 A2. Unexpectedly for a cysteine protease inhibitor, staphostatin B binds to staphopain B in an almost substrate-like manner. The inhibitor polypeptide chain runs through the protease active site cleft in the forward direction, with residues IG-TS in P2 to P2' positions. Both in the free and complexed forms, the P1 glycine residue of the inhibitor is in a main chain conformation only accessible to glycines. Mutations in this residue lead to a loss of affinity of the inhibitor for protease and convert the inhibitor into a substrate.


    Related Citations: 
    • Staphostatins resemble lipocalins, not cystatins in fold.
      Rzychon, M.,Filipek, R.,Sabat, A.,Kosowska, K.,Dubin, A.,Potempa, J.,Bochtler, M.
      (2003) Protein Sci. 12: 2252
    • Identification of a novel maturation mechanism and restricted substrate specificity for the SspB cysteine protease of Staphylococcus aureus
      Massimi, I.,Park, E.,Rice, K.,Muller-Esterl, W.,Sauder, D.,McGavin, M.J.
      (2002) J.Biol.Chem. 277: 41770
    • Staphostatins: an expanding new group of proteinase inhibitors with a unique specificity for the regulation of staphopains, Staphylococcus spp. cysteine proteinases
      Rzychon, M.,Sabat, A.,Kosowska, K.,Potempa, J.,Dubin, A.
      (2003) MOL.MICROBIOL. 49: 1051


    Organizational Affiliation

    International Institute of Molecular and Cell Biology, ul Trojdena 4, 02-109 Warsaw, Poland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
cysteine protease
A, B
183Staphylococcus aureusGene Names: sspB
EC: 3.4.22.-
Find proteins for P0C1S6 (Staphylococcus aureus)
Go to UniProtKB:  P0C1S6
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
cysteine protease Inhibitor
C, D
111Staphylococcus aureus (strain NCTC 8325)Gene Names: sspC
Find proteins for Q9EYW6 (Staphylococcus aureus (strain NCTC 8325))
Go to UniProtKB:  Q9EYW6
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GAI
Query on GAI

Download SDF File 
Download CCD File 
B
GUANIDINE
C H5 N3
ZRALSGWEFCBTJO-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.191 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 73.485α = 90.00
b = 94.966β = 90.00
c = 110.927γ = 90.00
Software Package:
Software NamePurpose
ARP/wARPmodel building
CCP4data scaling
MOSFLMdata reduction
FFFEARphasing
REFMACrefinement
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-10-21
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance