4GT8

Crystal Structure of the Catalytic and ATP-binding Domain from VraS in Complex with ADP

• PDB DOI: https://doi.org/10.2210/pdb4GT8/pdb

• Classification: TRANSFERASE
• Organism(s): Staphylococcus aureus subsp. aureus Mu50
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-08-28 Released: 2013-08-28 
• Deposition Author(s): Leonard, P.G., Valverde, J., Stock, A.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.51 Å
• R-Value Free: 0.199 
• R-Value Work: 0.183 
• R-Value Observed: 0.184 

Literature

Structure of the Staphylococcus aureus VraS Catalytic and ATP-binding Domain

Leonard, P.G., Valverde, J., Stock, A.M.

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)

Macromolecule Content

• Total Structure Weight: 16.23 kDa 
• Atom Count: 1,246 
• Modelled Residue Count: 133 
• Deposited Residue Count: 139 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sensor protein vraS	A	139	Staphylococcus aureus subsp. aureus Mu50	Mutation(s): 0  Gene Names: SAV1885, vraS EC: 2.7.13.3
UniProt
Find proteins for Q7A2Q0 (Staphylococcus aureus (strain Mu50 / ATCC 700699)) Explore Q7A2Q0  Go to UniProtKB:  Q7A2Q0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	B [auth A]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.51 Å
• R-Value Free: 0.199 
• R-Value Work: 0.183 
• R-Value Observed: 0.184 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 31.192	α = 90
b = 47.233	β = 90
c = 89.398	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
RESOLVE	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
ADSC	data collection

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-08-28 
Deposition Author(s): Leonard, P.G., Valverde, J., Stock, A.M.

Revision History  

• Version 1.0: 2013-08-28
  Type: Initial release
  
• Version 1.1: 2024-02-28
  Changes: Data collection, Database references, Derived calculations