Molecular model of a sensor of two-component signaling system

Ryzhykau Y, Orekhov P, Rulev M, Vlasov A, Melnikov I, Volkov D, Nikolaev M, Zabelskii D, Murugova T, Chupin V, Rogachev A, Gruzinov A, Svergun D, Brennich M, Gushchin I, Soler-Lopez M, Bothe A, Büldt G, Leonard G, Engelhard M, Kuklin A, Gordeliy V, Scientific Reports 11(1) (2021) DOI

SASDKZ6 – SAXS data for the complex of the sensory rhodopsin II with its cognate truncated transducer in detergent at 0.15 M NaCl

Sensory rhodopsin II from Natronbacterium pharaonis
Truncated sensory rhodopsin II transducer containing transmembrane and HAMP1 domains
MWexperimental 233 kDa
MWexpected 83 kDa
log I(s) 1.42×10-1 1.42×10-2 1.42×10-3 1.42×10-4
Sensory rhodopsin II from Natronbacterium pharaonis Truncated sensory rhodopsin II transducer containing transmembrane and HAMP1 domains small angle scattering data  s, nm-1
ln I(s)
Sensory rhodopsin II from Natronbacterium pharaonis Truncated sensory rhodopsin II transducer containing transmembrane and HAMP1 domains Guinier plot ln 1.43×10-1 Rg: 4.8 nm 0 (4.8 nm)-2 s2
(sRg)2I(s)/I(0)
Sensory rhodopsin II from Natronbacterium pharaonis Truncated sensory rhodopsin II transducer containing transmembrane and HAMP1 domains Kratky plot 1.104 0 √3 sRg
p(r)
Sensory rhodopsin II from Natronbacterium pharaonis Truncated sensory rhodopsin II transducer containing transmembrane and HAMP1 domains pair distance distribution function Rg: 4.6 nm 0 Dmax: 14 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Sensory rhodopsin II from Natronbacterium pharaonis Truncated sensory rhodopsin II transducer containing transmembrane and HAMP1 domains MEMPROT model
Synchrotron SAXS data from solutions of the sensory rhodopsin II with its cognate truncated transducer in 150 mM NaCl, 25 Na/K-Pi, 1 mM EDTA, 0.05 % DDM, pH 8 were collected on the BM29 beam line at the ESRF (Grenoble, France) using a Pilatus 1M detector at a sample-detector distance of 2.9 m and at a wavelength of λ = 0.09918 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 0.78 mg/ml was measured at 20°C. 20 successive 0.500 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 of study is a non-fused complex of sensory rhodopsin II (NpSRII, UniProt ID P42196) with its cognate truncated transducer (NpHtrII(1-137), UniProt ID P42259) from Nartonomonas pharaonis. The NpSRII/NpHtrII(1-137) complex in 0.05% (w/v) n-Dodecyl β-D-maltoside (DDM) detergent forms dimers at 150 mM NaCl.

Sensory rhodopsin II from Natronbacterium pharaonis (NpSRII)
Mol. type   Protein
Organism   Natronomonas pharaonis
Olig. state   Dimer
Mon. MW   26.7 kDa
 
UniProt   P42196 (1-239)
Sequence   FASTA
 
Truncated sensory rhodopsin II transducer containing transmembrane and HAMP1 domains (NpHtrII(1-137))
Mol. type   Protein
Organism   Natronomonas pharaonis
Olig. state   Dimer
Mon. MW   15.0 kDa
 
UniProt   P42259 (3-137)
Sequence   FASTA