M. tuberculosis class II apurinic/ apyrimidinic-endonuclease/3'-5' exonuclease (XthA) engages with NAD+-dependent DNA ligase A (LigA) to counter futile cleavage and ligation cycles in base excision repair.

Khanam T, Afsar M, Shukla A, Alam F, Kumar S, Soyar H, Dolma K, Pasupuleti M, Srivastava KK, Ampapathi RS, Ramachandran R, Nucleic Acids Res (2020) Europe PMC

SASDDD8 – class II apurinic/apyrimidinic-endonuclease/3'-5' exonuclease III

Probable exodeoxyribonuclease III protein XthA
MWexperimental 36 kDa
MWexpected 32 kDa
VPorod 56 nm3
log I(s) 1.36×101 1.36×100 1.36×10-1 1.36×10-2
Probable exodeoxyribonuclease III protein XthA small angle scattering data  s, nm-1
ln I(s)
Probable exodeoxyribonuclease III protein XthA Guinier plot ln 1.36×101 Rg: 2.4 nm 0 (2.4 nm)-2 s2
(sRg)2I(s)/I(0)
Probable exodeoxyribonuclease III protein XthA Kratky plot 1.104 0 √3 sRg
p(r)
Probable exodeoxyribonuclease III protein XthA pair distance distribution function Rg: 2.4 nm 0 Dmax: 7.3 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Probable exodeoxyribonuclease III protein XthA DAMMIF model
Synchrotron SAXS data from solutions of the class II apurinic/apyrimidinic-endonuclease/3'-5' exonuclease III in 50 mM Tris-HCl 500 mM NaCl 5mM β-mercaptoethanol, pH 8 were collected on the BM29 beam line at the ESRF (Grenoble, France) using a Pilatus 1M detector at a sample-detector distance of 1.1 m and at a wavelength of λ = 0.082 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 5.30 mg/ml was measured at 10°C. 10 successive 1 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.

CAUTION! The SAXS data at very-low angles (s < 0.21 nm-1) have error estimates and intensities that are unrealistic for a single-concentration SAXS profile and are inconsistent with the remaining dataset.

Probable exodeoxyribonuclease III protein XthA (MtbXthA)
Mol. type   Protein
Organism   Mycobacterium tuberculosis
Olig. state   Monomer
Mon. MW   32.1 kDa
 
UniProt   A0A0T9L251 (1-291)
Sequence   FASTA