9B1E

Cryo-EM structure of native SWR1 bound to nucleosome (composite structure)

Exp. Method	EM
Resolution, Å	4.4
Release Date	2024-10-09
Update Date	2024-12-11
Authors	Louder, R.K., Park, G., Ye, Z., Cha, J.S., Gardner, A.M., Lei, Q., Ranjan, A., Hollmuller, E., Stengel, F., Pugh, B.F., Wu, C.
doi	10.1016/j.cell.2024.09.007
Publication	PMID: 39357520
Related structures
RCSB PDB	9B1E
EMDB	EMD-44075
Q-score	0.191

Core histones in Nucleosome-like particles:

	Side	Chain	HistoneDB Variant	Taxa	UID
H3	Proximal	U	canonical H3	Drosophila melanogaster	P02299
H3	Distal	W	canonical H3	Drosophila melanogaster	P02299
H4	Proximal	V	canonical H4	Drosophila melanogaster	A0A0B4KFZ9
H4	Distal	X	canonical H4	Drosophila melanogaster	A0A0B4KFZ9
H2A	Proximal	S	H2A.X	Saccharomyces cerevisiae	P04911
H2A	Distal	Q	H2A.X	Saccharomyces cerevisiae	P04911
H2B	Proximal	T	canonical H2B	Saccharomyces cerevisiae	P02293
H2B	Distal	R	canonical H2B	Saccharomyces cerevisiae	P02293

Other proteins:

Chain	Name	UID
A	Helicase SWR1	Q05471
B	Vacuolar protein sorting-associated protein 72	Q03388
C	Actin-like protein ARP6	Q12509
D	Vacuolar protein sorting-associated protein 71	Q03433
E	RuvB-like protein 1	Q03940
F	RuvB-like protein 2	Q12464
G	RuvB-like protein 1	Q03940
H	RuvB-like protein 2	Q12464
I	RuvB-like protein 1	Q03940
J	RuvB-like protein 2	Q12464
K	SWR1-complex protein 3	P31376

DNA:

Chain	Variant	Length
Y	601	181
Z	601	181

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.

H2Ad chain Q

H2Bd chain R

H2Ap chain S

H2Bp chain T

H3p chain U

H4p chain V

H3d chain W

H4d chain X

DNA top chain Y, bot chain Z

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