8X19

Structure of nucleosome-bound SRCAP-C in the ADP-BeFx-bound state

Exp. Method	EM
Resolution, Å	3.2
Release Date	2024-03-06
Update Date	2024-03-06
Authors	Yu, J., Wang, Q., Yu, Z., Li, W., Wang, L., Xu, Y.
Publication	PMID:
doi
RCSB PDB	8X19
EMDB	EMD-37988
Q-score	0.292

Core histones in Nucleosome-like particles:

	Side	Chain	HistoneDB Variant	Taxa	UID
H3	Proximal	C	canonical H3	Homo sapiens	P68431
H3	Distal	G	canonical H3	Homo sapiens	P68431
H4	Proximal	D	canonical H4	Homo sapiens	P62805
H4	Distal	H	canonical H4	Homo sapiens	P62805
H2A	Proximal	E	canonical H2A	Homo sapiens	Q93077
H2A	Distal	A	canonical H2A	Homo sapiens	Q93077
H2B	Proximal	F	canonical H2B	Homo sapiens	P62807
H2B	Distal	B	canonical H2B	Homo sapiens	P62807

Other proteins:

Chain	Name	UID
I	Helicase SRCAP	Q6ZRS2
J	Vacuolar protein sorting-associated protein 72 homolog	Q15906
K	Actin-related protein 6	Q9GZN1
L	Zinc finger HIT domain-containing protein 1	O43257
M	RuvB-like 1	Q9Y265
N	RuvB-like 2	Q9Y230
O	RuvB-like 1	Q9Y265
P	RuvB-like 2	Q9Y230
Q	RuvB-like 1	Q9Y265
R	RuvB-like 2	Q9Y230
S	Actin, cytoplasmic 1	P60709
T	Actin-like protein 6A	O96019
U	Actin, cytoplasmic 1	P60709
V	DNA methyltransferase 1-associated protein 1	Q9NPF5
W	YEATS domain-containing protein 4	O95619

DNA:

Chain	Variant	Length
X	601	147
Y	601	147

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 A

H2Bd chain B

H3p chain C

H4p chain D

H2Ap chain E

H2Bp chain F

H3d chain G

H4d chain H

DNA top chain Y, bot chain X

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