6LER

169 bp nucleosome harboring non-identical cohesive DNA termini.

Exp. Method	X-ray
Resolution, Å	3
Release Date	2021-03-03
Update Date	2023-11-22
Authors	Adhireksan, Z., Sharma, D., Lee, P.L., Bao, Q., Padavattan, S., Shum, W.K., Davey, G.E., Davey, C.A.
Publication	PMID: 33590100
doi	10.1093/nar/gkab070
RCSB PDB	6LER

Core histones in Nucleosome-like particles:

	Side	Chain	HistoneDB Variant	Taxa	UID
H3	Proximal	A	canonical H3	Homo sapiens	P68431
H3	Distal	E	canonical H3	Homo sapiens	P68431
H4	Proximal	B	canonical H4	Homo sapiens	P62805
H4	Distal	F	canonical H4	Homo sapiens	P62805
H2A	Proximal	C	canonical H2A	Homo sapiens	P04908
H2A	Distal	G	canonical H2A	Homo sapiens	P04908
H2B	Proximal	D	canonical H2B	Homo sapiens	P06899
H2B	Distal	H	canonical H2B	Homo sapiens	P06899

	Side	Chain	HistoneDB Variant	Taxa	UID
H3	Proximal	O	canonical H3	Homo sapiens	P68431
H3	Distal	K	canonical H3	Homo sapiens	P68431
H4	Proximal	P	canonical H4	Homo sapiens	P62805
H4	Distal	L	canonical H4	Homo sapiens	P62805
H2A	Proximal	Q	canonical H2A	Homo sapiens	P04908
H2A	Distal	M	canonical H2A	Homo sapiens	P04908
H2B	Proximal	R	canonical H2B	Homo sapiens	P06899
H2B	Distal	N	canonical H2B	Homo sapiens	P06899

DNA:

Chain	Variant	Length
I	601_modified	169
J	601_modified	169
S	601_modified	169
T	601_modified	169

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 I, bot chain J

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