SAXS Structural Studies of Dps from Deinococcus radiodurans Highlights the Conformation of the Mobile N-Terminal Extensions.

Santos SP, Cuypers MG, Round A, Finet S, Narayanan T, Mitchell EP, Romão CV, J Mol Biol 429(5):667-687 (2017) Europe PMC

SASDBF7 – Dps2, DNA binding protein under starvation conditions (SEC-SAXS)

N-terminal truncated DNA protection during starvation protein 2
MWexperimental 262 kDa
MWexpected 279 kDa
VPorod 445 nm3
log I(s) 1.22×102 1.22×101 1.22×100 1.22×10-1
N-terminal truncated DNA protection during starvation protein 2 small angle scattering data  s, nm-1
ln I(s)
N-terminal truncated DNA protection during starvation protein 2 Guinier plot ln 1.23×102 Rg: 4.2 nm 0 (4.2 nm)-2 s2
(sRg)2I(s)/I(0)
N-terminal truncated DNA protection during starvation protein 2 Kratky plot 1.104 0 √3 sRg
p(r)
N-terminal truncated DNA protection during starvation protein 2 pair distance distribution function Rg: 4.2 nm 0 Dmax: 12.7 nm

Data validation

Fits and models

log I(s)
 s, nm-1
N-terminal truncated DNA protection during starvation protein 2 EOM/RANCH model
log I(s)
 s, nm-1
N-terminal truncated DNA protection during starvation protein 2 GASBOR model
Synchrotron SAXS data, I(s) vs s (s = 4π sin θ/λ, where 2θ is the scattering angle) were collected from a sample of Dps2, (DNA binding protein under starvation conditions) using continuous-flow size-exclusion chromatography SAXS (SEC-SAXS) at the BM29 beam line on the ESRF storage ring (Grenoble, France). Data (1500 successive 1 second frames), were collected using a Pilatus 1M detector at a sample-detector distance of 2.8 m and at a wavelength of λ = 0.09919 nm. The SEC mobile phase consisted of 20 mM Tris-HCl, 150 mM NaCl, pH 7.5, (20°C) with a sample injection concentration of 10 mg/ml. Data obtained from solute-free eluates and SEC-elution peak were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted from the SEC-peak frames to produce the data displayed in this entry.

SEC column = UNKNOWN. Sample injection volume = UNKNOWN. Flow rate = UNKNOWN

N-terminal truncated DNA protection during starvation protein 2 (DrDps2)
Mol. type   Protein
Organism   Deinococcus radiodurans R1
Olig. state   Dodecamer
Mon. MW   23.3 kDa
 
UniProt   Q9RZN1 (31-241)
Sequence   FASTA