Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 18.99 kDa 
• Atom Count: 1649 
• Modelled Residue Count: 165 
• Deposited Residue Count: 165 
• Unique protein chains: 2

3ROF

Crystal Structure of the S. aureus Protein Tyrosine Phosphatase PtpA

• PDB DOI: 10.2210/pdb3ROF/pdb

• Classification: HYDROLASE
• Organism(s): Staphylococcus aureus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-04-25 Released: 2011-09-07 
• Deposition Author(s): Grundner, C., Chou, S., Engel, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.03 Å
• R-Value Free: 0.169 
• R-Value Work: 0.149 
• R-Value Observed: 0.150 

Literature

Structure and substrate recognition of the Staphylococcus aureus protein tyrosine phosphatase PtpA.

Vega, C., Chou, S., Engel, K., Harrell, M.E., Rajagopal, L., Grundner, C.

(2011) J Mol Biol 413: 24-31

• PubMed: 21871460 
• DOI: 10.1016/j.jmb.2011.08.015
• Primary Citation of Related Structures:  
  3ROF


• PubMed Abstract: 
  

Phosphosignaling through pSer/pThr/pTyr is emerging as a common signaling mechanism in prokaryotes. The human pathogen Staphylococcus aureus produces two low-molecular-weight protein tyrosine phosphatases (PTPs), PtpA and PtpB, with unknown functions. To provide the structural context for understanding PtpA function and substrate recognition, establish PtpA's structural relations within the PTP family, and provide a framework for the design of specific inhibitors, we solved the crystal structure of PtpA at 1 Å resolution. While PtpA adopts the common, conserved PTP fold and shows close overall similarity to eukaryotic PTPs, several features in the active site and surface organization are unique and can be explored to design selective inhibitors. A peptide bound in the active site mimics a phosphotyrosine substrate, affords insight into substrate recognition, and provides a testable substrate prediction. Genetic deletion of ptpA or ptpB does not affect in vitro growth or cell wall integrity, raising the possibility that PtpA and PtpB have specialized functions during infection.

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Organizational Affiliation: 

Seattle Biomedical Research Institute, Seattle, WA 98109, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Low molecular weight protein-tyrosine-phosphatase ptpA	A	158	Staphylococcus aureus	Mutation(s): 0  Gene Names: ptpA EC: 3.1.3.48
UniProt
Find proteins for P0C5D2 (Staphylococcus aureus) Explore P0C5D2  Go to UniProtKB:  P0C5D2

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Expression tag cleaved from protein-tyrosine-phosphatase ptpA	B	7	Staphylococcus aureus	Mutation(s): 0  Gene Names: ptpA

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	C [auth A], D [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.03 Å
• R-Value Free: 0.169 
• R-Value Work: 0.149 
• R-Value Observed: 0.150 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 34.81	α = 90
b = 35.1	β = 91.05
c = 65.51	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
XDS	data reduction
XDS	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-04-25 
• Released Date: 2011-09-07 
Deposition Author(s): Grundner, C., Chou, S., Engel, K.

Revision History  

• Version 1.0: 2011-09-07
  Type: Initial release
  
• Version 1.1: 2012-05-23
  Changes: Database references
• Version 1.2: 2017-11-08
  Changes: Advisory, Refinement description