2MLM | pdb_00002mlm

Solution structure of sortase A from S. aureus in complex with benzo[d]isothiazol-3-one based inhibitor


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history

Literature

Discovery and structure-activity relationship studies of irreversible benzisothiazolinone-based inhibitors against Staphylococcus aureus sortase A transpeptidase.

Zhulenkovs, D.Rudevica, Z.Jaudzems, K.Turks, M.Leonchiks, A.

(2014) Bioorg Med Chem 22: 5988-6003

  • DOI: https://doi.org/10.1016/j.bmc.2014.09.011
  • Primary Citation Related Structures: 
    2MLM

  • PubMed Abstract: 

    Gram-positive bacteria, in general, and staphylococci, in particular, are the widespread cause of nosocomial and community-acquired infections. The rapid evolvement of strains resistant to antibiotics currently in use is a serious challenge. Novel antimicrobial compounds have to be developed to fight these resistant bacteria, and sortase A, a bacterial cell wall enzyme, is a promising target for novel therapies. As a transpeptidase that covalently attaches various virulence factors to the cell surface, this enzyme plays a crucial role in the ability of bacteria to invade the host's tissues and to escape the immune response. In this study we have screened a small molecule library against recombinant Staphylococcus aureus sortase A using an in vitro FRET-based assay. The selected hits were validated by NMR methods in order to exclude false positives and to analyze the reversibility of inhibition. Further structural and functional analysis of the best hit allowed the identification of a novel class of benzisothiazolinone-based compounds as potent and promising sortase inhibitors.


  • Organizational Affiliation
    • Latvian Biomedical Research and Study Centre, Ratsupites 1, Riga LV-1067, Latvia; University of Latvia, Raina bulv. 19, Riga LV-1586, Latvia. Electronic address: dmitry@biomed.lu.lv.

Macromolecule Content 

  • Total Structure Weight: 17.17 kDa 
  • Atom Count: 1,205 
  • Modeled Residue Count: 148 
  • Deposited Residue Count: 148 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Sortase family protein148Staphylococcus aureus CA-347Mutation(s): 0 
Gene Names: CA347_2602

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
2W7

Query on 2W7



Download:Ideal Coordinates CCD File
B [auth A]N-{2-oxo-2-[(3s,5s,7s)-tricyclo[3.3.1.1~3,7~]dec-1-ylamino]ethyl}-2-sulfanylbenzamide
C19 H24 N2 O2 S
XDQOSIXIPHKGDJ-KRFSREQESA-N

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-11-19
    Type: Initial release
  • Version 1.1: 2014-12-17
    Changes: Database references
  • Version 1.2: 2018-06-27
    Changes: Data collection, Derived calculations, Experimental preparation
  • Version 1.3: 2024-10-30
    Changes: Data collection, Database references, Derived calculations, Structure summary