SMTL ID : 8eu9.1

Class1 of the INO80-Nucleosome complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-3-3-1-mer

Ligands

6 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)(Covalent)

ADP.1: 18 residues within 4Å: Chain D: A.6, H.7, H.9, G.27, F.28, V.29, P.61, S.62, T.63, G.64, K.65, T.66, A.67, Y.355, I.363, R.393 Chain E: R.297, R.336 19 PLIP interactions: 15 interactions with chain D, 4 interactions with chain E Hydrogen bonds: D:H.7, D:V.29, D:G.60, D:S.62, D:T.63, D:G.64, D:K.65, D:T.66, D:T.66, D:A.67, D:Y.355, D:Y.355 Salt bridges: D:H.7, D:K.65, D:R.393, E:R.297, E:R.297, E:R.336, E:R.336 ADP.2: 18 residues within 4Å: Chain E: A.8, H.9, H.11, G.29, M.30, V.31, P.62, S.64, T.65, G.66, K.67, T.68, A.69, Y.345, I.353, L.382, R.383 Chain F: E.309 15 PLIP interactions: 15 interactions with chain E Hydrogen bonds: E:H.9, E:V.31, E:S.64, E:T.65, E:G.66, E:K.67, E:T.68, E:T.68, E:A.69, E:Y.345, E:Y.345, E:R.383 Salt bridges: E:H.9, E:K.67, E:R.383 ADP.3: 18 residues within 4Å: Chain F: A.6, H.7, H.9, G.27, F.28, V.29, P.61, S.62, T.63, G.64, K.65, T.66, A.67, Y.355, I.363, R.393 Chain G: R.297, E.300 16 PLIP interactions: 15 interactions with chain F, 1 interactions with chain G Hydrogen bonds: F:A.6, F:V.29, F:V.29, F:S.62, F:T.63, F:G.64, F:K.65, F:T.66, F:T.66, F:A.67, F:Y.355, G:R.297 Salt bridges: F:H.7, F:K.65, F:R.393, F:R.393 ADP.4: 18 residues within 4Å: Chain G: A.8, H.9, H.11, G.29, M.30, V.31, P.63, S.64, T.65, G.66, K.67, T.68, A.69, Y.345, I.353, L.382, R.383 Chain H: R.346 17 PLIP interactions: 16 interactions with chain G, 1 interactions with chain H Hydrogen bonds: G:A.8, G:V.31, G:S.64, G:T.65, G:G.66, G:K.67, G:T.68, G:T.68, G:A.69, G:Y.345, G:Y.345, G:R.383, H:R.346 Salt bridges: G:H.9, G:K.67, G:R.383, G:R.383 ADP.5: 22 residues within 4Å: Chain H: A.6, H.9, I.10, G.27, F.28, V.29, Q.31, G.60, P.61, S.62, T.63, G.64, K.65, T.66, A.67, Y.355, I.363, L.392, R.393, L.396 Chain I: R.297, R.336 16 PLIP interactions: 15 interactions with chain H, 1 interactions with chain I Hydrogen bonds: H:A.6, H:V.29, H:S.62, H:T.63, H:T.63, H:G.64, H:K.65, H:T.66, H:T.66, H:A.67, H:Y.355, H:Y.355 Salt bridges: H:K.65, H:R.393, H:R.393, I:R.336 ADP.6: 19 residues within 4Å: Chain I: A.8, H.9, H.11, G.29, M.30, V.31, P.62, P.63, S.64, T.65, G.66, K.67, T.68, A.69, Y.345, I.353, R.357, L.382, R.383 15 PLIP interactions: 14 interactions with chain I, 1 interactions with chain D Hydrogen bonds: I:A.8, I:V.31, I:S.64, I:T.65, I:G.66, I:K.67, I:T.68, I:A.69, I:Y.345, I:Y.345, D:R.346 Salt bridges: I:H.9, I:K.67, I:R.383, I:R.383

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, H. et al., Reorientation of INO80 on hexasomes reveals basis for mechanistic versatility. Science (2023)

Release Date

2023-07-12

Peptides

Chromatin-remodeling ATPase INO80: A
Actin-related protein 5: B
Chromatin-remodeling complex subunit IES6: C
RuvB-like protein 1: DFH
RuvB-like protein 2: EGI
Ino eighty subunit 2: J

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
Q

B
R

C
S

D
T

F
V

H
X

E
U

G
W

I
Y

J
Z

Chromatin-remodeling ATPase INO80

Actin-related protein 5

Chromatin-remodeling complex subunit IES6

RuvB-like protein 1

RuvB-like protein 2

Ino eighty subunit 2

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