I-Shaped Dimers of a Plant Chloroplast FOF1-ATP Synthase in Response to Changes in Ionic Strength

Osipov S, Ryzhykau Y, Zinovev E, Minaeva A, Ivashchenko S, Verteletskiy D, Sudarev V, Kuklina D, Nikolaev M, Semenov Y, Zagryadskaya Y, Okhrimenko I, Gette M, Dronova E, Shishkin A, Dencher N, Kuklin A, Ivanovich V, Uversky V, Vlasov A, International Journal of Molecular Sciences 24(13):10720 (2023) DOI

SASDRR8 – Сhloroplast FOF1-ATP synthase from Spinacia oleracea purified by anion-exchange chromatography (~ 300 mM NaCl)

ATP synthase subunit alpha, chloroplastic
ATP synthase subunit beta, chloroplastic
ATP synthase gamma chain, chloroplastic
ATP synthase delta chain, chloroplastic
ATP synthase epsilon chain, chloroplastic
ATP synthase subunit a, chloroplastic
ATP synthase subunit b, chloroplastic
ATP synthase subunit b', chloroplastic
ATP synthase subunit c, chloroplastic
4-trans-(4-trans-Propylcyclohexyl)-cyclohexyl α-maltoside
MWexperimental 880 kDa
MWexpected 878 kDa
VPorod 927 nm3
log I(s) 9.52×10-1 9.52×10-2 9.52×10-3 9.52×10-4
ATP synthase subunit alpha, chloroplastic ATP synthase subunit beta, chloroplastic ATP synthase gamma chain, chloroplastic ATP synthase delta chain, chloroplastic ATP synthase epsilon chain, chloroplastic ATP synthase subunit a, chloroplastic ATP synthase subunit b, chloroplastic ATP synthase subunit b', chloroplastic ATP synthase subunit c, chloroplastic 4-trans-(4-trans-Propylcyclohexyl)-cyclohexyl α-maltoside small angle scattering data  s, nm-1
ln I(s)
ATP synthase subunit alpha, chloroplastic ATP synthase subunit beta, chloroplastic ATP synthase gamma chain, chloroplastic ATP synthase delta chain, chloroplastic ATP synthase epsilon chain, chloroplastic ATP synthase subunit a, chloroplastic ATP synthase subunit b, chloroplastic ATP synthase subunit b', chloroplastic ATP synthase subunit c, chloroplastic 4-trans-(4-trans-Propylcyclohexyl)-cyclohexyl α-maltoside Guinier plot ln 9.53×10-1 Rg: 6.6 nm 0 (6.6 nm)-2 s2
(sRg)2I(s)/I(0)
ATP synthase subunit alpha, chloroplastic ATP synthase subunit beta, chloroplastic ATP synthase gamma chain, chloroplastic ATP synthase delta chain, chloroplastic ATP synthase epsilon chain, chloroplastic ATP synthase subunit a, chloroplastic ATP synthase subunit b, chloroplastic ATP synthase subunit b', chloroplastic ATP synthase subunit c, chloroplastic 4-trans-(4-trans-Propylcyclohexyl)-cyclohexyl α-maltoside Kratky plot 1.104 0 3 sRg
p(r)
ATP synthase subunit alpha, chloroplastic ATP synthase subunit beta, chloroplastic ATP synthase gamma chain, chloroplastic ATP synthase delta chain, chloroplastic ATP synthase epsilon chain, chloroplastic ATP synthase subunit a, chloroplastic ATP synthase subunit b, chloroplastic ATP synthase subunit b', chloroplastic ATP synthase subunit c, chloroplastic 4-trans-(4-trans-Propylcyclohexyl)-cyclohexyl α-maltoside pair distance distribution function Rg: 7.3 nm 0 Dmax: 27.5 nm

Data validation


Fits and models


log I(s)
 s, nm-1
ATP synthase subunit alpha, chloroplastic ATP synthase subunit beta, chloroplastic ATP synthase gamma chain, chloroplastic ATP synthase delta chain, chloroplastic ATP synthase epsilon chain, chloroplastic ATP synthase subunit a, chloroplastic ATP synthase subunit b, chloroplastic ATP synthase subunit b', chloroplastic ATP synthase subunit c, chloroplastic 4-trans-(4-trans-Propylcyclohexyl)-cyclohexyl α-maltoside MEMPROT model

log I(s)
 s, nm-1
ATP synthase subunit alpha, chloroplastic ATP synthase subunit beta, chloroplastic ATP synthase gamma chain, chloroplastic ATP synthase delta chain, chloroplastic ATP synthase epsilon chain, chloroplastic ATP synthase subunit a, chloroplastic ATP synthase subunit b, chloroplastic ATP synthase subunit b', chloroplastic ATP synthase subunit c, chloroplastic 4-trans-(4-trans-Propylcyclohexyl)-cyclohexyl α-maltoside PDB (PROTEIN DATA BANK) model

SAXS data from solutions of chloroplast FOF1-ATP synthase purified by anion-exchange chromatography in ~300 mM NaCl, 30 mM HEPES, 2 mM MgCl2, 0.04% (w/v) tPCC-α-M, pH 8 were collected using a Rigaku MicroMax 007-HF instrument at the Moscow Institute of Physics and Technology (MIPT; Dolgoprudny, Russian Federation) equipped with a Multiwire gas-filled ASM DTR Triton 200 detector at a sample-detector distance of 2 m and at a wavelength of λ = 0.154 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 5.00 mg/ml was measured at 20°C. One 5400 second frame was 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 of study is a chloroplast FOF1-ATP synthase (cFOF1) from Spinacia oleracea solubilized in 0.04% (w/v) 4-trans-(4-trans-Propylcyclohexyl)-cyclohexyl α-maltoside (tPCC-α-M). SAXS data confirm that cFOF1 purified by anion-exchange chromatography (elution at ~300 mM NaCl) is a momomer with detergent belt including 517 detergent molecules. Taking into account a detergent belt allows improving the χ2 of the fit from 1.35 to 1.15.

ATP synthase subunit alpha, chloroplastic
Mol. type   Protein
Organism   Spinacia oleracea
Olig. state   Trimer
Mon. MW   55.5 kDa
 
UniProt   P06450 (1-507)
Sequence   FASTA
 
ATP synthase subunit beta, chloroplastic
Mol. type   Protein
Organism   Spinacia oleracea
Olig. state   Trimer
Mon. MW   53.7 kDa
 
UniProt   P00825 (1-498)
Sequence   FASTA
 
ATP synthase gamma chain, chloroplastic
Mol. type   Protein
Organism   Spinacia oleracea
Olig. state   Monomer
Mon. MW   40.1 kDa
 
UniProt   P05435 (1-364)
Sequence   FASTA
 
ATP synthase delta chain, chloroplastic
Mol. type   Protein
Organism   Spinacia oleracea
Olig. state   Monomer
Mon. MW   27.7 kDa
 
UniProt   P11402 (1-257)
Sequence   FASTA
 
ATP synthase epsilon chain, chloroplastic
Mol. type   Protein
Organism   Spinacia oleracea
Olig. state   Monomer
Mon. MW   14.7 kDa
 
UniProt   P00833 (1-134)
Sequence   FASTA
 
ATP synthase subunit a, chloroplastic
Mol. type   Protein
Organism   Spinacia oleracea
Olig. state   Monomer
Mon. MW   27.1 kDa
 
UniProt   P06451 (1-247)
Sequence   FASTA
 
ATP synthase subunit b, chloroplastic
Mol. type   Protein
Organism   Spinacia oleracea
Olig. state   Monomer
Mon. MW   21.0 kDa
 
UniProt   P06453 (1-184)
Sequence   FASTA
 
ATP synthase subunit b', chloroplastic
Mol. type   Protein
Organism   Spinacia oleracea
Olig. state   Monomer
Mon. MW   24.5 kDa
 
UniProt   P31853 (1-222)
Sequence   FASTA
 
ATP synthase subunit c, chloroplastic
Mol. type   Protein
Organism   Spinacia oleracea
Olig. state   14-mer
Mon. MW   8.0 kDa
 
UniProt   P69447 (1-81)
Sequence   FASTA
 
4-trans-(4-trans-Propylcyclohexyl)-cyclohexyl α-maltoside (tPCC-α-M)
Mol. type   Other
Olig. state   0
Mon. MW   0.5 kDa
Chemical formula
 
PDB ID   6FKF
 
PDB ID   6FKF