SMTL ID : 7uqi.1

Cryo-EM structure of the S. cerevisiae chromatin remodeler Yta7 hexamer bound to ADP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-9-mer

Ligands

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

ADP.1: 16 residues within 4Å: Chain A: D.451, I.452, G.453, P.492, P.493, G.494, T.495, G.496, K.497, T.498, L.499, I.631, Q.635, G.660, A.661, R.664 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:G.453, A:G.453, A:P.492, A:G.494, A:T.495, A:T.495, A:G.496, A:K.497, A:T.498, A:T.498, A:T.498, A:L.499, A:Q.635, A:R.664 Salt bridges: A:K.497 ADP.2: 17 residues within 4Å: Chain A: M.586, R.610 Chain B: D.451, I.452, G.453, L.455, G.494, T.495, G.496, K.497, T.498, L.499, I.631, Q.635, G.660, A.661, R.664 15 PLIP interactions: 12 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:G.453, B:G.494, B:T.495, B:T.495, B:G.496, B:K.497, B:T.498, B:T.498, B:L.499, B:Q.635, B:R.664, A:M.586, A:R.610 Salt bridges: B:K.497, A:R.610 ADP.3: 18 residues within 4Å: Chain B: D.584, R.610 Chain C: D.451, I.452, G.453, L.455, P.493, G.494, T.495, G.496, K.497, T.498, L.499, I.631, Q.635, G.660, A.661, R.664 14 PLIP interactions: 12 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:G.453, C:G.494, C:T.495, C:T.495, C:G.496, C:K.497, C:T.498, C:T.498, C:T.498, C:L.499, C:Q.635 Salt bridges: C:K.497, B:R.610, B:R.610 ADP.4: 15 residues within 4Å: Chain C: R.610 Chain D: D.451, G.453, L.455, G.494, T.495, G.496, K.497, T.498, L.499, I.631, Q.635, G.660, A.661, R.664 11 PLIP interactions: 11 interactions with chain D Hydrogen bonds: D:G.453, D:G.494, D:G.494, D:T.495, D:T.495, D:G.496, D:K.497, D:T.498, D:L.499, D:Q.635, D:R.664 ADP.5: 13 residues within 4Å: Chain D: R.610 Chain E: G.453, G.494, T.495, G.496, K.497, T.498, L.499, I.631, Q.635, G.660, A.661, R.664 10 PLIP interactions: 9 interactions with chain E, 1 interactions with chain D Hydrogen bonds: E:G.453, E:G.494, E:G.496, E:K.497, E:T.498, E:T.498, E:L.499, E:Q.635, E:R.664 Salt bridges: D:R.610

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, F. et al., The Saccharomyces cerevisiae Yta7 ATPase hexamer contains a unique bromodomain tier that functions in nucleosome disassembly. J.Biol.Chem. (2022)

Release Date

2023-02-01

Peptides

ATPase histone chaperone YTA7: ABCDEFGHI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

ATPase histone chaperone YTA7

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