RCSB PDB - 9G7P: Crystal structure of Shewanella putrefaciens PE-like toxin, Spx

 9G7P

Crystal structure of Shewanella putrefaciens PE-like toxin, Spx


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.185 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Discovery of Additional Family Members Reveals High Structural Conservation Across Mono-ADP Ribosylating Toxins

Masuyer, G.Mrsny, R.J.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Shewanella putrefaciens PE-like toxin catalytically inactive mutantA [auth AAA],
B [auth BBB],
C [auth CCC]
613Shewanella putrefaciensMutation(s): 0 
EC: 2.4.2.36
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
D [auth AAA]
E [auth AAA]
G [auth BBB]
H [auth BBB]
K [auth CCC]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
F [auth AAA],
I [auth BBB],
J [auth BBB],
M [auth CCC]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.185 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 121.196α = 90
b = 121.196β = 90
c = 125.216γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
DIALSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

  • Released Date: 2025-01-29 
  • Deposition Author(s): Masuyer, G.

Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2025-01-29
    Type: Initial release