Recombinant AcnB, NrdR and RibD of Acinetobacter baumannii and their potential interaction with DNA adenine methyltransferase AamA.

Weber K, Doellinger J, Jeffries CM, Wilharm G, Protein Expr Purif :106134 (2022) Europe PMC

SASDNE5 – Acinetobacter baumannii aconitate hydratase B, monomer/dimer mixed fraction

Aconitate hydratase B
MWexperimental 138 kDa
MWexpected 96 kDa
VPorod 230 nm3
log I(s) 3.47×10-1 3.47×10-2 3.47×10-3 3.47×10-4
Aconitate hydratase B small angle scattering data  s, nm-1
ln I(s)
Aconitate hydratase B Guinier plot ln 3.48×10-1 Rg: 4.0 nm 0 (4.0 nm)-2 s2
Aconitate hydratase B Kratky plot 1.104 0 3 sRg
Aconitate hydratase B pair distance distribution function Rg: 4.0 nm 0 Dmax: 14 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Aconitate hydratase B GASBOR model

log I(s)
 s, nm-1
Aconitate hydratase B GASBOR model

Synchrotron SAXS data from solutions of aconitate hydratase B, monomer/dimer mixed fraction, in 100 mM NaCl, 20 mM Tris, 1 mM DTT, 3% v/v glycerol, pH 8 were collected on the EMBL P12 beam line at PETRA III (DESY; Hamburg, Germany) using a Pilatus 6M detector at a sample-detector distance of 3 m and at a wavelength of λ = 0.124 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 4.70 mg/ml was measured at 20°C. 80 successive 0.100 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted.

The molecular weight quoted is derived from concentration independent estimates spanning the credibility interval 127–162 kDa (expected MW of a full dimer is 192 kDa). Concentration dependent MW estimates, relative to a BSA standard, is estimated at approximately 113 kDa. Note - the data used to calculate the PDDF, and for model generation, was not normalised to protein concentration (ca. 4.7 mg/ml). The models displayed in this entry include: Top - a single GASBOR model representative of the dimer incorporating the volume fraction weighted monomer-dimer mixture fit to the data (35% volume fraction dimer, 65% volume fraction monomer) and; Bottom - the corresponding monomer and fit to the monomer-only data (estimated at 100% volume fraction monomer; and refer to SASBDB entry SASDND5). Alternative GASBORmx models are made available in the full entry zip archive (volume fractions are recorded in the header of the corresponding .pdb files).

Aconitate hydratase B (AcnB)
Mol. type   Protein
Organism   Acinetobacter baumannii
Olig. state   Unknown
Mon. MW   95.8 kDa
UniProt   V5VBJ4 (1-879)
Sequence   FASTA