SMTL ID : 9c9z.1

S.c INO80 in complex with Xenopus 0/80 nucleosome, INO80 Core

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)

ADP.1: 19 residues within 4Å: Chain D: A.26, H.27, H.29, I.30, G.47, F.48, V.49, P.81, S.82, T.83, G.84, K.85, T.86, A.87, Y.375, I.383, R.413 Chain I: E.314, R.350 16 PLIP interactions: 15 interactions with chain D, 1 interactions with chain I Hydrogen bonds: D:A.26, D:V.49, D:S.82, D:T.83, D:G.84, D:K.85, D:T.86, D:T.86, D:A.87, D:Y.375, D:Y.375, I:R.350 Salt bridges: D:H.27, D:K.85, D:R.413, D:R.413 ADP.2: 17 residues within 4Å: Chain E: A.22, H.23, H.25, G.43, M.44, V.45, P.76, S.78, T.79, G.80, K.81, T.82, A.83, Y.359, I.367, L.396, R.397 15 PLIP interactions: 15 interactions with chain E Hydrogen bonds: E:A.22, E:V.45, E:S.78, E:T.79, E:G.80, E:K.81, E:T.82, E:T.82, E:A.83, E:Y.359, E:Y.359 Salt bridges: E:H.23, E:K.81, E:R.397, E:R.397 ADP.3: 19 residues within 4Å: Chain E: E.314, R.350 Chain F: A.26, H.27, H.29, G.47, F.48, V.49, G.80, P.81, S.82, T.83, G.84, K.85, T.86, A.87, Y.375, I.383, R.413 15 PLIP interactions: 14 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:H.27, F:V.49, F:S.82, F:T.83, F:G.84, F:K.85, F:T.86, F:T.86, F:A.87, F:Y.375, F:Y.375, E:R.350 Salt bridges: F:K.85, F:R.413, F:R.413 ADP.4: 17 residues within 4Å: Chain G: A.22, H.23, H.25, G.43, M.44, V.45, P.77, S.78, T.79, G.80, K.81, T.82, A.83, Y.359, I.367, L.396, R.397 16 PLIP interactions: 15 interactions with chain G, 1 interactions with chain F Hydrogen bonds: G:A.22, G:V.45, G:S.78, G:T.79, G:G.80, G:K.81, G:T.82, G:T.82, G:A.83, G:Y.359, G:Y.359, F:R.366 Salt bridges: G:H.23, G:K.81, G:R.397, G:R.397 ADP.5: 18 residues within 4Å: Chain G: E.314 Chain H: A.26, H.27, H.29, G.47, F.48, V.49, G.80, P.81, S.82, T.83, G.84, K.85, T.86, A.87, Y.375, I.383, R.413 17 PLIP interactions: 17 interactions with chain H Hydrogen bonds: H:H.27, H:V.49, H:S.82, H:T.83, H:G.84, H:K.85, H:T.86, H:T.86, H:T.86, H:A.87, H:N.341, H:Y.375, H:Y.375 Salt bridges: H:H.27, H:K.85, H:R.413, H:R.413 ADP.6: 19 residues within 4Å: Chain I: A.22, H.23, H.25, I.26, G.43, M.44, V.45, P.76, P.77, S.78, T.79, G.80, K.81, T.82, A.83, Y.359, I.367, L.396, R.397 14 PLIP interactions: 14 interactions with chain I Hydrogen bonds: I:H.23, I:V.45, I:S.78, I:T.79, I:G.80, I:K.81, I:T.82, I:A.83, I:Y.359, I:Y.359 Salt bridges: I:H.23, I:K.81, I:R.397, I:R.397

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kaur, U. et al., Autoinhibition imposed by a large conformational switch of INO80 regulates nucleosome positioning. Science (2025)

Release Date

2025-07-16

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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