6D0I

ParT: Prs ADP-ribosylating toxin bound to cognate antitoxin ParS. L48M ParT, SeMet-substituted complex.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.159 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

ParST is a widespread toxin-antitoxin module that targets nucleotide metabolism.

Piscotta, F.J.Jeffrey, P.D.Link, A.J.

(2019) Proc. Natl. Acad. Sci. U.S.A. 116: 826-834


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ParT: COG5654 (RES domain) toxin
A, C
160Sphingobium sp. YBL2Mutation(s): 1 
Find proteins for A0A0C5XL88 (Sphingobium sp. YBL2)
Go to UniProtKB:  A0A0C5XL88
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
ParS: COG5642 (DUF2384) antitoxin fragment
B, D
72Sphingobium sp. YBL2Mutation(s): 0 
Find proteins for A0A0C5XKJ0 (Sphingobium sp. YBL2)
Go to UniProtKB:  A0A0C5XKJ0
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
C
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.159 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 41.977α = 84.68
b = 51.319β = 73.82
c = 57.941γ = 85.51
Software Package:
Software NamePurpose
DENZOdata reduction
Aimlessdata scaling
MERLOTphasing
PDB_EXTRACTdata extraction
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-01-09
    Type: Initial release
  • Version 1.1: 2019-01-23
    Type: Data collection, Database references