4QAX | pdb_00004qax

Crystal structure of post-catalytic binary complex of Phosphoglycerate mutase from Staphylococcus aureus

• PDB DOI: https://doi.org/10.2210/pdb4QAX/pdb

• Classification: ISOMERASE
• Organism(s): Staphylococcus aureus subsp. aureus NCTC 8325
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-05-06 Released: 2015-05-06 
• Deposition Author(s): Roychowdhury, A., Kundu, A., Bose, M., Gujar, A., Das, A.K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.214 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.166 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.168 (Depositor) 

Starting Model: experimental

Literature

STRUCTURAL AND FUNCCTIONAL ANALYSIS of PHOSPHOGLYCERATE MUTASE from STAPHYLOCOCCUS AUREUS

Roychowdhury, A., Kundu, A., Bose, M., Gujar, A., Mukherjee, S., Das, A.K.

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: 57.76 kDa 
• Atom Count: 4,235 
• Modeled Residue Count: 503 
• Deposited Residue Count: 513 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2,3-bisphosphoglycerate-independent phosphoglycerate mutase	A	513	Staphylococcus aureus subsp. aureus NCTC 8325	Mutation(s): 0  Gene Names: gpmI, SAOUHSC_00798 EC: 5.4.2.12
UniProt
Find proteins for Q2G029 (Staphylococcus aureus (strain NCTC 8325 / PS 47)) Explore Q2G029  Go to UniProtKB:  Q2G029

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
2PG	D [auth A]	2-PHOSPHOGLYCERIC ACID C3 H7 O7 P GXIURPTVHJPJLF-UWTATZPHSA-N
MN	B [auth A], C [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.214 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.166 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.168 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.802	α = 90
b = 80.689	β = 90
c = 89.254	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
StructureStudio	data collection
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-05-06 
Deposition Author(s): Roychowdhury, A., Kundu, A., Bose, M., Gujar, A., Das, A.K.

Revision History  

• Version 1.0: 2015-05-06
  Type: Initial release
  
• Version 1.1: 2023-11-08
  Changes: Data collection, Database references, Derived calculations, Refinement description