6KW3

The ClassA RSC-Nucleosome Complex

Exp. Method	EM
Resolution, Å	7.13
Release Date	2019-11-13
Update Date	2024-03-27
Authors	Ye, Y., Wu, H., Chen, K., Clapier, C.R., Verma, N., Zhang, W., Deng, H., Cairns, B.R., Gao, N., Chen, Z.
Publication	PMID: 31672915
doi	10.1126/science.aay0033
RCSB PDB	6KW3
EMDB	EMD-0777
Q-score	0.086

Core histones in Nucleosome-like particles:

	Side	Chain	HistoneDB Variant	Taxa	UID
H3	Proximal	Q	canonical H3	Xenopus laevis	P84233
H3	Distal	N	canonical H3	Xenopus laevis	P84233
H4	Proximal	R	canonical H4	Xenopus laevis	P62799
H4	Distal	B	canonical H4	Xenopus laevis	P62799
H2A	Proximal	S	canonical H2A	Xenopus laevis	P06897
H2A	Distal	O	canonical H2A	Xenopus laevis	P06897
H2B	Proximal	P	canonical H2B	Xenopus laevis	P02281
H2B	Distal	T	canonical H2B	Xenopus laevis	P02281

Other proteins:

Chain	Name	UID
A	Chromatin structure-remodeling complex protein RSC58	Q07979
C	Chromatin structure-remodeling complex protein RSC30	P38781
D	Chromatin structure-remodeling complex protein RSC8	P43609
E	High temperature lethal protein 1	Q9URQ5
F	Chromatin structure-remodeling complex subunit RSC7	P32832
G	Chromatin structure-remodeling complex subunit SFH1	Q06168
H	Chromatin structure-remodeling complex protein RSC8	P43609
I	Chromatin structure-remodeling complex protein RSC6	P25632
J	Nuclear protein STH1/NPS1	P32597
K	Chromatin structure-remodeling complex protein RSC3	Q06639
L	Chromatin structure-remodeling complex subunit RSC2	Q06488
M	Chromatin structure-remodeling complex subunit RSC9	Q03124
W	Nuclear protein STH1/NPS1	P32597
X	Chromatin structure-remodeling complex subunit RSC4	Q02206
Y	Nuclear protein STH1/NPS1	P32597
f	Actin-related protein 7	Q12406
g	Actin-like protein ARP9	Q05123
h	Regulator of Ty1 transposition protein 102	P53330

DNA:

Chain	Variant	Length
U	601	146
V	601	146

H3

H4

H2A

H2B

DNA

Other

Orthographic Superimpose 1KX5 Show axes

Aligned nucleosome coordinates

X - Y

X - Z

Z - Y

Nucleosome reference frame definition

DNA relative twist and local base step parameters

3DNA

Relative Twist

Sequence on X-axis is numbered relative to the dyad base pair.

Atomic contacts between nucleosomal entities.

H4d chain B

H3d chain N

H2Ad chain O

H2Bp chain P

H3p chain Q

H4p chain R

H2Ap chain S

H2Bd chain T

DNA top chain U, bot chain V

Hover the mouse cursor on the barplot to show contact information. Oncogenic mutations of non-histone proteins in contact are highlighted.