The TOPOVIBL meiotic DSB formation protein: new insights from its biochemical and structural characterization

Diagouraga B, Tambones I, Carivenc C, Bechara C, Nadal M, de Massy B, le Maire A, Robert T, Nucleic Acids Research (2024) DOI

SASDTS4 – Type 2 DNA topoisomerase 6 subunit B-like

Type 2 DNA topoisomerase 6 subunit B-like
MWexperimental 62 kDa
MWexpected 61 kDa
VPorod 114 nm3
log I(s) 7.38×10-3 7.38×10-4 7.38×10-5 7.38×10-6
Type 2 DNA topoisomerase 6 subunit B-like small angle scattering data  s, nm-1
ln I(s)
Type 2 DNA topoisomerase 6 subunit B-like Guinier plot ln 7.38×10-3 Rg: 3.7 nm 0 (3.7 nm)-2 s2
(sRg)2I(s)/I(0)
Type 2 DNA topoisomerase 6 subunit B-like Kratky plot 1.104 0 3 sRg
p(r)
Type 2 DNA topoisomerase 6 subunit B-like pair distance distribution function Rg: 3.9 nm 0 Dmax: 15.6 nm

Data validation


Fits and models


log I(s)
 s, nm-1
Type 2 DNA topoisomerase 6 subunit B-like Rg histogram Rg, nm
Type 2 DNA topoisomerase 6 subunit B-like EOM/RANCH model
Type 2 DNA topoisomerase 6 subunit B-like EOM/RANCH model
Type 2 DNA topoisomerase 6 subunit B-like EOM/RANCH model
Type 2 DNA topoisomerase 6 subunit B-like EOM/RANCH model
Type 2 DNA topoisomerase 6 subunit B-like EOM/RANCH model
Type 2 DNA topoisomerase 6 subunit B-like EOM/RANCH model
Type 2 DNA topoisomerase 6 subunit B-like EOM/RANCH model
Type 2 DNA topoisomerase 6 subunit B-like EOM/RANCH model

Synchrotron SAXS data from solutions of Type 2 DNA topoisomerase 6 subunit B-like in 20 mM HEPES, 500 mM KCl, 5% glycerol, 1 mM DTT, pH 7.5 were collected on the SWING beam line at SOLEIL (Saint-Aubin, France) using a Eiger 4M detector at a sample-detector distance of 2 m and at a wavelength of λ = 0.10332 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed. The SEC parameters were as follows: A 50.00 μl sample at 12 mg/ml was injected at a 0.50 ml/min flow rate onto a GE Superdex 200 Increase 10/300 column at 15°C. 900 successive 1.990 second frames were collected throughout the entire SEC elution. The data from the sample peak (8 data frames) were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted.

Type 2 DNA topoisomerase 6 subunit B-like (TOPOVIBL)
Mol. type   Protein
Organism   Mus musculus
Olig. state   Monomer
Mon. MW   61.0 kDa
 
UniProt   J3QMY9 (1-554)
Sequence   FASTA