Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex.

Upla P, Kim SJ, Sampathkumar P, Dutta K, Cahill SM, Chemmama IE, Williams R, Bonanno JB, Rice WJ, Stokes DL, Cowburn D, Almo SC, Sali A, Rout MP, Fernandez-Martinez J, Structure 25(3):434-445 (2017) Europe PMC

SASDBX9 – Immunoglobulin domain 6 of Nucleoporin Pom152 (Pom152 Ig-6: amino acids 919-1020)

Nucleoporin POM152

MW^I(0)	15	kDa
MW^expected	12	kDa
V^Porod	57	nm³

log I(s) 2.06×10² 2.06×10¹ 2.06×10⁰ 2.06×10^-1

Nucleoporin POM152 small angle scattering data

s, nm^-1

Log plot Log-Log plot

ln I(s)

ln 2.06×10² R_g: 2.8 nm 0 (2.8 nm)^-2 s²

(sR_g)²I(s)/I(0)

1.104 0 √3 sR_g

p(r)	R_g: 2.6 nm 0 D_max: 7.9 nm

Data validation

Experimental data range

p(r) fit to data

Metric

Value

s_min D_max / π

0.3

N_Shannon

Worse

Better

Metric

Value

p_cormap

χ²

0
2.894

Worse

Better

Fits and models

log I(s)	s, nm^-1
+3 Δ/σ -3	s, nm^-1

Synchrotron SAXS data from solutions of Immunoglobulin domain 6 of Nucleoporin Pom152 (Pom152 Ig-6: amino acids 919-1020) in 10mM HEPES, 150mM NaCl, 10%(v/v) glycerol, 5mM DTT, pH 7.5 were collected on the BL4-2 beam line at the Stanford Synchrotron Radiation Lightsource (SSRL) (Stanford, CA, USA) using a Rayonix MX225-HE detector at a sample-detector distance of 1.7 m and at a wavelength of λ = 0.098 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). Solute concentrations ranging between 1 and 1 mg/ml were measured at 15°C. 20 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 and the different curves were scaled for protein concentration.

Guinier Rg and I_0 were calculated using AutoRg. MW was estimated using SAXSMOW.

Nucleoporin POM152
Mol. type		Protein
Organism		Saccharomyces cerevisiae
Olig. state		Monomer
Mon. MW		12.5 kDa

UniProt		P39685
Sequence		FASTA