3NTS

Catalytic domain of VsdC from Aeromonas hydrophila

• PDB DOI: https://doi.org/10.2210/pdb3NTS/pdb

• Classification: TRANSFERASE
• Organism(s): Aeromonas hydrophila
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-07-05 Released: 2011-06-22 
• Deposition Author(s): Pfoh, R., Shniffer, A., Merrill, A.R., Pai, E.F.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.291 
• R-Value Work: 0.271 
• R-Value Observed: 0.272 

Literature

Biochemical characterization of an actin-targeting ADP ribosyltransferase from aeromonas hydrophila and the identification of a novel inhibitor for this toxin family

Shniffer, A., Suarez, G., Turgeon, Z.J., Pfoh, R., Fieldhouse, R.J., K Chopra, A., Pai, E.F., Merrill, A.R.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 53.41 kDa 
• Atom Count: 2,854 
• Modelled Residue Count: 374 
• Deposited Residue Count: 482 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
VsdC	A, B	241	Aeromonas hydrophila	Mutation(s): 0  Gene Names: vsdC
UniProt
Find proteins for Q49TP5 (Aeromonas hydrophila) Explore Q49TP5  Go to UniProtKB:  Q49TP5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.291 
• R-Value Work: 0.271 
• R-Value Observed: 0.272 
• Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.8	α = 90
b = 87.8	β = 90
c = 295.7	γ = 120

Software Package:

Software Name	Purpose
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345dtb	data collection
HKL-2000	data reduction
SADABS	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-06-22 
Deposition Author(s): Pfoh, R., Shniffer, A., Merrill, A.R., Pai, E.F.

Revision History  

• Version 1.0: 2011-06-22
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-12-27
  Changes: Data collection, Database references, Derived calculations