5OY7

Structure of the 4_601_157 tetranucleosome (P1 form)

Exp. Method	X-ray
Resolution, Å	5.774
Release Date	2017-09-20
Update Date	2024-01-17
Authors	Ekundayo, B., Richmond, T.J., Schalch, T.
Publication	PMID: 28893533
doi	10.1016/j.jmb.2017.09.002
Related structures	5OXV
RCSB PDB	5OY7

Core histones in Nucleosome-like particles:

	Side	Chain	HistoneDB Variant	Taxa	UID
H3	Proximal	A	canonical H3	Xenopus laevis	P84233
H3	Distal	E	canonical H3	Xenopus laevis	P84233
H4	Proximal	B	canonical H4	Xenopus laevis	P62799
H4	Distal	F	canonical H4	Xenopus laevis	P62799
H2A	Proximal	C	canonical H2A	Xenopus laevis	P06897
H2A	Distal	G	canonical H2A	Xenopus laevis	P06897
H2B	Proximal	D	canonical H2B	Xenopus laevis	P02281
H2B	Distal	H	canonical H2B	Xenopus laevis	P02281

	Side	Chain	HistoneDB Variant	Taxa	UID
H3	Proximal	I	canonical H3	Xenopus laevis	P84233
H3	Distal	M	canonical H3	Xenopus laevis	P84233
H4	Proximal	J	canonical H4	Xenopus laevis	P62799
H4	Distal	N	canonical H4	Xenopus laevis	P62799
H2A	Proximal	K	canonical H2A	Xenopus laevis	P06897
H2A	Distal	O	canonical H2A	Xenopus laevis	P06897
H2B	Proximal	L	canonical H2B	Xenopus laevis	P02281
H2B	Distal	P	canonical H2B	Xenopus laevis	P02281

	Side	Chain	HistoneDB Variant	Taxa	UID
H3	Proximal	Q	canonical H3	Xenopus laevis	P84233
H3	Distal	U	canonical H3	Xenopus laevis	P84233
H4	Proximal	R	canonical H4	Xenopus laevis	P62799
H4	Distal	V	canonical H4	Xenopus laevis	P62799
H2A	Proximal	S	canonical H2A	Xenopus laevis	P06897
H2A	Distal	W	canonical H2A	Xenopus laevis	P06897
H2B	Proximal	T	canonical H2B	Xenopus laevis	P02281
H2B	Distal	X	canonical H2B	Xenopus laevis	P02281

	Side	Chain	HistoneDB Variant	Taxa	UID
H3	Proximal	Y	canonical H3	Xenopus laevis	P84233
H3	Distal	c	canonical H3	Xenopus laevis	P84233
H4	Proximal	Z	canonical H4	Xenopus laevis	P62799
H4	Distal	d	canonical H4	Xenopus laevis	P62799
H2A	Proximal	a	canonical H2A	Xenopus laevis	P06897
H2A	Distal	e	canonical H2A	Xenopus laevis	P06897
H2B	Proximal	b	canonical H2B	Xenopus laevis	P02281
H2B	Distal	f	canonical H2B	Xenopus laevis	P02281

DNA:

Chain	Variant	Length
g	601	619
h	601	619

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.

H3p chain A

H4p chain B

H2Ap chain C

H2Bp chain D

H3d chain E

H4d chain F

H2Ad chain G

H2Bd chain H

DNA top chain g, bot chain h

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