Biophysical characterization of the complex between the iron-responsive transcription factor Fep1 and DNA.

Miele AE, Cervoni L, Le Roy A, Cutone A, Musci G, Ebel C, Bonaccorsi di Patti MC, Eur Biophys J (2021) Europe PMC

SASDJ56 – Fep1-GATA

GATA-type iron responsive transcription factor Fep1
24-mer double strand DNA from the GATA promoter
MWI(0) 47 kDa
MWexpected 36 kDa
VPorod 85 nm3
log I(s) 3.11×101 3.11×100 3.11×10-1 3.11×10-2
GATA-type iron responsive transcription factor Fep1 24-mer double strand DNA from the GATA promoter small angle scattering data  s, nm-1
ln I(s)
GATA-type iron responsive transcription factor Fep1 24-mer double strand DNA from the GATA promoter Guinier plot ln 3.12×101 Rg: 3.2 nm 0 (3.2 nm)-2 s2
(sRg)2I(s)/I(0)
GATA-type iron responsive transcription factor Fep1 24-mer double strand DNA from the GATA promoter Kratky plot 1.104 0 3 sRg
p(r)
GATA-type iron responsive transcription factor Fep1 24-mer double strand DNA from the GATA promoter pair distance distribution function Rg: 3.3 nm 0 Dmax: 12.0 nm

Data validation


There are no models related to this curve.

Synchrotron SAXS data from solutions of Fep1-GATA in 50 mM MOPS, 50 mM NaCl, pH 7 were collected on the BM29 beam line at the ESRF storage ring (Grenoble, France) using a Pilatus 1M detector at a sample-detector distance of 2.9 m and at a wavelength of λ = 0.0999 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 40.00 μl sample was injected at a 0.40 ml/min flow rate onto a GE Superdex 75 Increase 5/150 column at 20°C. 900 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.

The complex between the Fep1 transcription factor and its cognate DNA (GATAds) has been formed in solution prior to injection to the HPLC-SEC column. Protein and DNA were both 100 microM, the expected MW for a 1:1 complex is 34 kDa. The experiment has been run at BM29 of ESRF (Grenoble, France) on the same day as the previous deposited samples. All the protein samples were coming from the same purification batch. Data were analysed with ChromixS, for buffer subtraction 20 frames were averaged, the I(q) vs q was derived form the frames of the main peak (256-282).

GATA-type iron responsive transcription factor Fep1 (Fep1)
Mol. type   Protein
Organism   Komagataella pastoris
Olig. state   Monomer
Mon. MW   22.1 kDa
 
UniProt   A4VAR6 (1-208)
Sequence   FASTA
 
24-mer double strand DNA from the GATA promoter (GATAds)
Mol. type   DNA
Organism   synthetic oligonucleotide
Olig. state   Dimer
Mon. MW   6.8 kDa
Sequence   FASTA