4NSL | pdb_00004nsl

X-ray Crystal structure of Adenylosuccinate Lyase from Salmonella typhimurium

• PDB DOI: https://doi.org/10.2210/pdb4NSL/pdb

• Classification: LYASE
• Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-11-28 Released: 2014-12-03 
• Deposition Author(s): Banerjee, S., Agrawal, M.J., Murthy, M.R.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 
  0.274 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.220 (Depositor), 0.214 (DCC) 
• R-Value Observed: 
  0.223 (Depositor) 

Starting Model: experimental

Literature

Crystallographic and kinetic studies on Adenylosuccinate Lyase from Salmonella typhimurium

Banerjee, S., Agrawal, M.J., Murthy, N.M., Balaram, H., Savithri, H.S., N Murthy, M.R.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content 

• Total Structure Weight: 213.09 kDa 
• Atom Count: 14,068 
• Modeled Residue Count: 1,782 
• Deposited Residue Count: 1,880 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adenylosuccinate lyase	A, B, C, D	470	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	Mutation(s): 0  Gene Names: purB, STM1232 EC: 4.3.2.2
UniProt
Find proteins for Q8ZPZ6 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore Q8ZPZ6  Go to UniProtKB:  Q8ZPZ6

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
N2P	E [auth B], F [auth C]	PENTANE-1,5-DIAMINE C5 H14 N2 VHRGRCVQAFMJIZ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free:  0.274 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.220 (Depositor), 0.214 (DCC) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.708	α = 90
b = 102.297	β = 90
c = 198.399	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
PHASER	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-12-03 
Deposition Author(s): Banerjee, S., Agrawal, M.J., Murthy, M.R.N.

Revision History  

• Version 1.0: 2014-12-03
  Type: Initial release
  
• Version 1.1: 2014-12-10
  Changes: Database references
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description