Structural insights into the C-terminus of the histone-lysine N-methyltransferase NSD3 by small-angle X-ray scattering.

Belviso BD, Shen Y, Carrozzini B, Morishita M, di Luccio E, Caliandro R, Front Mol Biosci 11:1191246 (2024) Europe PMC

SASDNL8 – The C-terminal region of histone-lysine N-methyltransferase NSD3: PWWP2-SET construct

Histone-lysine N-methyltransferase NSD3
MWI(0) 43 kDa
MWexpected 43 kDa
VPorod 64 nm3
log I(s) 3.38×10-3 3.38×10-4 3.38×10-5 3.38×10-6
Histone-lysine N-methyltransferase NSD3 small angle scattering data  s, nm-1
ln I(s)
Histone-lysine N-methyltransferase NSD3 Guinier plot ln 3.39×10-3 Rg: 3.1 nm 0 (3.1 nm)-2 s2
(sRg)2I(s)/I(0)
Histone-lysine N-methyltransferase NSD3 Kratky plot 1.104 0 3 sRg
p(r)
Histone-lysine N-methyltransferase NSD3 pair distance distribution function Rg: 3.3 nm 0 Dmax: 11.2 nm

Data validation


Fits and models


log I(s)
 s, nm-1
Histone-lysine N-methyltransferase NSD3 OTHER model

log I(s)
 s, nm-1
Histone-lysine N-methyltransferase NSD3 DAMMIN model

Synchrotron SAXS data from solutions of the C-terminal region of histone-lysine N-methyltransferase NSD3 (PWWP2-SET construct) in 0.5 M NaCl, 20 mM Tris-HCl, 5 mM DTT, pH 8.5 were collected on the B21 beam line at the Diamond Light Source (Didcot, UK) using a Eiger 4M detector at a sample-detector distance of 4.0 m and at a wavelength of λ = 0.1 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 50.00 μl sample at 1.6 mg/ml was injected at a 0.16 ml/min flow rate onto a Shodex KW402.5-4F column at 20°C. 400 successive 3 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 individual (unsubtracted) SEC-SAXS data frames and all DAMMIF model reconstructions are included in the full entry zip archive.

Histone-lysine N-methyltransferase NSD3 (NSD3-PWWP-SET)
Mol. type   Protein
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   43.2 kDa
 
UniProt   Q9BZ95 (942-1318)
Sequence   FASTA