Structural aspects of RimP binding on small ribosomal subunit from Staphylococcus aureus.

Garaeva N, Fatkhullin B, Murzakhanov F, Gafurov M, Golubev A, Bikmullin A, Glazyrin M, Kieffer B, Jenner L, Klochkov V, Aganov A, Rogachev A, Ivankov O, Validov S, Yusupov M, Usachev K, Structure (2023) Europe PMC

SASDSJ2 – Ribosome maturation factor RimP bound to 30S ribosomal protein S12 (RimP-uS12 complex from Staphylococcus aureus)

Ribosome maturation factor RimP
30S ribosomal protein S12
MWI(0) 28 kDa
MWexpected 33 kDa
VPorod 39 nm3
log I(s) 2.16×10-1 2.16×10-2 2.16×10-3 2.16×10-4
Ribosome maturation factor RimP 30S ribosomal protein S12 small angle scattering data  s, nm-1
ln I(s)
Ribosome maturation factor RimP 30S ribosomal protein S12 Guinier plot ln 2.17×10-1 Rg: 2.4 nm 0 (2.4 nm)-2 s2
(sRg)2I(s)/I(0)
Ribosome maturation factor RimP 30S ribosomal protein S12 Kratky plot 1.104 0 √3 sRg
p(r)
Ribosome maturation factor RimP 30S ribosomal protein S12 pair distance distribution function Rg: 2.5 nm 0 Dmax: 10 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Ribosome maturation factor RimP 30S ribosomal protein S12 DAMMIN model
SAXS data from solutions of the RimP-uS12 complex in 50 mM sodium phosphate, 200 mM NaCl, pH 7 were collected using a Xeuss 3.0 SAXS/WAXS System at the Joint Institute for Nuclear Research (JINR: Dubna, Russian Federation) equipped with a Dectris / Eiger2 R 1M 2D-detector detector at a sample-detector distance of 1.8 m and at a wavelength of λ = 0.154 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 3 and 8 mg/ml were measured at 20°C. 100 successive 0.010 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.

Ribosome maturation factor RimP (RimP)
Mol. type   Protein
Organism   Staphylococcus aureus (strain COL)
Olig. state   Monomer
Mon. MW   17.7 kDa
 
UniProt   Q5HGG6 (2-155)
Sequence   FASTA
 
30S ribosomal protein S12 (uS12)
Mol. type   Protein
Organism   Staphylococcus aureus (strain COL)
Olig. state   Monomer
Mon. MW   15.1 kDa
 
UniProt   Q5HID0 (2-136)
Sequence   FASTA