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

SASDEW3 – DNA ligase A (MtbLigA) complexed with exodeoxyribonuclease III protein (MtbXthA)

DNA ligase A
Probable exodeoxyribonuclease III protein XthA
MWexperimental 112 kDa
MWexpected 109 kDa
VPorod 662 nm3
log I(s) 1.97×102 1.97×101 1.97×100 1.97×10-1
DNA ligase A Probable exodeoxyribonuclease III protein XthA small angle scattering data  s, nm-1
ln I(s)
DNA ligase A Probable exodeoxyribonuclease III protein XthA Guinier plot ln 1.98×102 Rg: 6.2 nm 0 (6.2 nm)-2 s2
(sRg)2I(s)/I(0)
DNA ligase A Probable exodeoxyribonuclease III protein XthA Kratky plot 1.104 0 √3 sRg
p(r)
DNA ligase A Probable exodeoxyribonuclease III protein XthA pair distance distribution function Rg: 6.7 nm 0 Dmax: 23.9 nm

Data validation

Fits and models

log I(s)
 s, nm-1
DNA ligase A Probable exodeoxyribonuclease III protein XthA DAMMIF model
DNA ligase A Probable exodeoxyribonuclease III protein XthA DAMFILT model
Synchrotron SAXS data from solutions of DNA ligase A (MtbLigA) complexed with exodeoxyribonuclease III protein (MtbXthA) in 50 mM Tris-HCl 200 mM NaCl 2mM β-mercaptoethanol (BME), 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 = 0.081 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 2.50 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.

DNA ligase A (MtbLigA)
Mol. type   Protein
Organism   Mycobacterium tuberculosis
Olig. state   Monomer
Mon. MW   76.1 kDa
 
UniProt   P9WNV1
Sequence   FASTA
 
Probable exodeoxyribonuclease III protein XthA (MtbXthA)
Mol. type   Protein
Organism   Mycobacterium tuberculosis
Olig. state   Monomer
Mon. MW   32.9 kDa
 
UniProt   A0A0T9L251 (1-291)
Sequence   FASTA