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

SASDJ46 – Fep1-rec-GATA

GATA-type iron responsive transcription factor Fep1 reconstituted
24-mer double strand DNA from the GATA promoter
MWexperimental 35 kDa
MWexpected 36 kDa
VPorod 73 nm3
log I(s) 1.94×101 1.94×100 1.94×10-1 1.94×10-2
GATA-type iron responsive transcription factor Fep1 reconstituted 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 reconstituted 24-mer double strand DNA from the GATA promoter Guinier plot ln 1.94×101 Rg: 3.5 nm 0 (3.5 nm)-2 s2
(sRg)2I(s)/I(0)
GATA-type iron responsive transcription factor Fep1 reconstituted 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 reconstituted 24-mer double strand DNA from the GATA promoter pair distance distribution function Rg: 3.6 nm 0 Dmax: 13.1 nm

Data validation


There are no models related to this curve.

Synchrotron SAXS data from solutions of Fep1-rec-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 protein Fep1 was first reconstituted to saturate all the possible [2Fe2S] clusters, as described in the previous project. Then it was purified and this purified Fep1-rec was incubated with a stoichiometric amount of double strand cognate GATA element. The protein and the DNA were both 100 microM. The complex was then loaded into a SEC column and the scattering of the elution solution was collected in continuous.

GATA-type iron responsive transcription factor Fep1 reconstituted (Fep1-rec)
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