Calcium modulates the tethering of BCOR-PRC1.1 enzymatic core to KDM2B via liquid-liquid phase separation.

Chen R, Shen F, Zhang Y, Sun M, Dong Y, Yin Y, Su C, Peng C, Liu J, Xu J, Commun Biol 7(1):1112 (2024) Europe PMC

SASDS67 – Complex of BCL-6 corepressor linker-PUFD bound to Polycomb group RING finger protein 1 RAWUL, Lysine-specific demethylase 2B F-box-LRRs, and S-phase kinase-associated protein 1

BCL-6 corepressor
Lysine-specific demethylase 2B
Polycomb group RING finger protein 1
S-phase kinase-associated protein 1
MWexperimental 79 kDa
MWexpected 79 kDa
VPorod 118 nm3
log I(s) 8.53×100 8.53×10-1 8.53×10-2 8.53×10-3
BCL-6 corepressor Lysine-specific demethylase 2B Polycomb group RING finger protein 1 S-phase kinase-associated protein 1 small angle scattering data  s, nm-1
ln I(s)
BCL-6 corepressor Lysine-specific demethylase 2B Polycomb group RING finger protein 1 S-phase kinase-associated protein 1 Guinier plot ln 8.53×100 Rg: 3.3 nm 0 (3.3 nm)-2 s2
(sRg)2I(s)/I(0)
BCL-6 corepressor Lysine-specific demethylase 2B Polycomb group RING finger protein 1 S-phase kinase-associated protein 1 Kratky plot 1.104 0 3 sRg
p(r)
BCL-6 corepressor Lysine-specific demethylase 2B Polycomb group RING finger protein 1 S-phase kinase-associated protein 1 pair distance distribution function Rg: 3.3 nm 0 Dmax: 11.5 nm

Data validation


Fits and models


log I(s)
 s, nm-1
BCL-6 corepressor Lysine-specific demethylase 2B Polycomb group RING finger protein 1 S-phase kinase-associated protein 1 OTHER model

Synchrotron SAXS data from solutions of the protein complex BCOR(linker-PUFD)/PCGF1(RAWUL)/KDM2B(F-box-LRRs)/SKP1 in 20 mM Tris-HCl, 150 mM NaCl, pH 7.5 were collected on the BL19U2 beam line at the Shanghai Synchrotron Radiation Facility (SSRF; Shanghai, China) using a Pilatus 1M detector at a sample-detector distance of 2.9 m and at a wavelength of λ = 0.1033 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 100.00 μl sample at 10 mg/ml was injected at a 0.50 ml/min flow rate onto a column at 25°C. 1600 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.

SEC column = UNKNOWN

BCL-6 corepressor (BCOR(linker-PUFD))
Mol. type   Protein
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   16.1 kDa
 
UniProt   Q6W2J9 (1607-1748)
Sequence   FASTA
 
Lysine-specific demethylase 2B (KDM2B(F-box-LRRs))
Mol. type   Protein
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   31.8 kDa
 
UniProt   Q8NHM5 (1059-1336)
Sequence   FASTA
 
Polycomb group RING finger protein 1 (PCGF1(RAWUL))
Mol. type   Protein
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   12.7 kDa
 
UniProt   Q9BSM1 (150-255)
Sequence   FASTA
 
S-phase kinase-associated protein 1 (SKP1)
Mol. type   Protein
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   18.7 kDa
 
UniProt   P63208 (1-163)
Sequence   FASTA