NucleosomeDB 8KD1

Exp. Method	EM
Resolution, Å	3.2
Release Date	2025-03-12
Update Date	2025-03-12
Authors	Kujirai, T., Echigoya, K., Kishi, Y., Saeki, M., Ito, T., Kato, J., Negishi, L., Kimura, H., Masumoto, H., Takizawa, Y., Gotoh, Y., Kurumizaka, H.
doi	10.1038/s41594-025-01493-w
Publication	PMID: 39984731
Related structures
RCSB PDB	8KD1
EMDB	EMD-37121
Q-score	0.404

	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

Chain	Name	UID
K	Protein DEK	P35659

Chain	Variant	Length
I	601L	173
J	601L	173

H2A

H2B

DNA

Other

Orthographic Superimpose 1KX5 Show axes

X - Y

X - Z

Z - Y

3DNA

Relative Twist

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

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.

8KD1