SMTL ID : 8a5a.1

Structure of Arp4-Ies4-N-actin-Arp8-Ino80HSA subcomplex (A-module) of INO80

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

3 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 20 residues within 4Å: Chain B: G.274, S.275, N.276, S.277, K.279, G.405, G.504, A.505, A.506, E.507, D.531, E.563, K.566, K.567, G.734, G.735, S.736, K.738, I.739 Ligands: MG.2 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:S.275, B:N.276, B:S.277, B:G.405, B:A.505, B:A.506, B:E.507, B:D.531, B:E.563, B:E.563, B:K.566, B:G.735, B:K.738, B:K.738 Salt bridges: B:K.279, B:K.279 ATP.3: 21 residues within 4Å: Chain C: G.13, S.14, G.15, M.16, K.18, Q.137, G.156, D.157, G.158, V.159, G.182, R.210, K.213, E.214, G.301, G.302, T.303, M.305, F.306, K.336 Ligands: MG.4 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:S.14, C:G.15, C:M.16, C:D.157, C:D.157, C:D.157, C:G.158, C:V.159, C:K.213, C:E.214, C:G.302 Salt bridges: C:K.18, C:K.18 pi-Stacking: C:F.306 ATP.5: 19 residues within 4Å: Chain D: G.22, S.23, Y.24, T.25, G.161, H.162, D.163, T.164, G.187, Q.240, K.243, E.244, G.412, G.413, T.414, S.416, I.417, Q.449 Ligands: MG.6 15 PLIP interactions: 15 interactions with chain D Hydrogen bonds: D:S.23, D:S.23, D:Y.24, D:T.25, D:T.25, D:G.161, D:H.162, D:H.162, D:D.163, D:T.164, D:T.164, D:K.243, D:G.413, D:T.414, D:Q.449

3 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.2: 1 residues within 4Å: Ligands: ATP.1 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain C: Q.137 Ligands: ATP.3 No protein-ligand interaction detected (PLIP) MG.6: 1 residues within 4Å: Ligands: ATP.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kunert, F. et al., Structural mechanism of extranucleosomal DNA readout by the INO80 complex. Sci Adv (2022)

Release Date

2022-12-14

Peptides

Chromatin-remodeling ATPase INO80: A
Actin-like protein ARP8: B
Actin: C
Actin-related protein 4: D
Ino eighty subunit 4: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
U

C
V

D
W

E
X

Chromatin-remodeling ATPase INO80

Actin-like protein ARP8

Actin

Actin-related protein 4

Ino eighty subunit 4

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