4OA3 | pdb_00004oa3

Crystal structure of the BA42 protein from BIZIONIA ARGENTINENSIS

• PDB DOI: https://doi.org/10.2210/pdb4OA3/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Bizionia argentinensis JUB59
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-01-03 Released: 2014-08-20 
• Deposition Author(s): Otero, L.H., Klinke, S., Aran, M., Pellizza, L., Goldbaum, F.A., Cicero, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.39 Å
• R-Value Free: 
  0.205 (Depositor), 0.207 (DCC) 
• R-Value Work: 
  0.174 (Depositor), 0.176 (DCC) 
• R-Value Observed: 
  0.176 (Depositor) 

Starting Model: experimental

Literature

Solution and crystal structure of BA42, a protein from the Antarctic bacterium Bizionia argentinensis comprised of a stand-alone TPM domain.

Aran, M., Smal, C., Pellizza, L., Gallo, M., Otero, L.H., Klinke, S., Goldbaum, F.A., Ithurralde, E.R., Bercovich, A., Mac Cormack, W.P., Turjanski, A.G., Cicero, D.O.

(2014) Proteins 82: 3062-3078

• PubMed: 25116514 
• DOI: https://doi.org/10.1002/prot.24667
• Primary Citation Related Structures: 
  2MPB, 4OA3


• PubMed Abstract: 
  

  The structure of the BA42 protein belonging to the Antarctic flavobacterium Bizionia argentinensis was determined by nuclear magnetic resonance and X-ray crystallography. This is the first structure of a member of the PF04536 family comprised of a stand-alone TPM domain. The structure reveals a new topological variant of the four β-strands constituting the central β-sheet of the αβα architecture and a double metal binding site stabilizing a pair of crossing loops, not observed in previous structures of proteins belonging to this family. BA42 shows differences in structure and dynamics in the presence or absence of bound metals. The affinity for divalent metal ions is close to that observed in proteins that modulate their activity as a function of metal concentration, anticipating a possible role for BA42.

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Organizational Affiliation: 
• Fundación Instituto Leloir, IIBBA-CONICET, Patricias Argentinas 435 (C1405BWE), Buenos Aires, Argentina.

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: 16.64 kDa 
• Atom Count: 1,325 
• Modeled Residue Count: 141 
• Deposited Residue Count: 146 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN BA42	A	146	Bizionia argentinensis JUB59	Mutation(s): 0  Gene Names: BZARG_1551
UniProt
Find proteins for G2EA45 (Bizionia argentinensis JUB59) Explore G2EA45  Go to UniProtKB:  G2EA45

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	B [auth A], C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.39 Å
• R-Value Free:  0.205 (Depositor), 0.207 (DCC) 
• R-Value Work:  0.174 (Depositor), 0.176 (DCC) 
• R-Value Observed: 0.176 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 31.92	α = 90
b = 39.62	β = 90
c = 106.97	γ = 90

Software Package:

Software Name	Purpose
MxCuBE	data collection
AMoRE	phasing
BUSTER	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-08-20 
Deposition Author(s): Otero, L.H., Klinke, S., Aran, M., Pellizza, L., Goldbaum, F.A., Cicero, D.

Revision History  

• Version 1.0: 2014-08-20
  Type: Initial release
  
• Version 1.1: 2014-11-12
  Changes: Database references
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description