2PFM | pdb_00002pfm

Crystal Structure of Adenylosuccinate Lyase (PurB) from Bacillus anthracis

• PDB DOI: https://doi.org/10.2210/pdb2PFM/pdb

• Classification: LYASE
• Organism(s): Bacillus anthracis
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2007-04-05 Released: 2007-04-17 
• Deposition Author(s): Levdikov, V.M., Blagova, E.V., Baumgart, M., Moroz, O.V., Wilkinson, A.J., Wilson, K.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.208 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.163 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.165 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Adenylosuccinate Lyase (PurB) from Bacillus anthracis

Levdikov, V.M., Blagova, E.V., Wilkinson, A.J., Wilson, K.S.

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,PQS (software)

Macromolecule Content 

• Total Structure Weight: 102.54 kDa 
• Atom Count: 7,545 
• Modeled Residue Count: 868 
• Deposited Residue Count: 888 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adenylosuccinate lyase	A, B	444	Bacillus anthracis	Mutation(s): 0  Gene Names: purB EC: 4.3.2.2
UniProt
Find proteins for A0A6L8PR48 (Bacillus anthracis) Explore A0A6L8PR48  Go to UniProtKB:  A0A6L8PR48

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MLI	C [auth A], D [auth A], E [auth A]	MALONATE ION C3 H2 O4 OFOBLEOULBTSOW-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.208 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.163 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.165 (Depositor) 

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 154.381	α = 90
b = 154.381	β = 90
c = 174.989	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-04-17 
Deposition Author(s): Levdikov, V.M., Blagova, E.V., Baumgart, M., Moroz, O.V., Wilkinson, A.J., Wilson, K.S.

Revision History  

• Version 1.0: 2007-04-17
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Refinement description