SMTL ID : 5zbb.1

Crystal structure of Rtt109-Asf1-H3-H4 complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.60 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

23 x IOD: IODIDE ION(Non-functional Binders)

IOD.1: 3 residues within 4Å: Chain A: Y.146, W.169 Chain C: K.57 Ligand excluded by PLIP IOD.2: 2 residues within 4Å: Chain A: H.55, D.411 Ligand excluded by PLIP IOD.3: 1 residues within 4Å: Chain A: N.237 Ligand excluded by PLIP IOD.4: 1 residues within 4Å: Chain A: L.297 Ligand excluded by PLIP IOD.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.6: 1 residues within 4Å: Chain A: Q.243 Ligand excluded by PLIP IOD.7: 1 residues within 4Å: Chain A: A.225 Ligand excluded by PLIP IOD.8: 4 residues within 4Å: Chain A: S.110, L.112, R.113, W.168 Ligand excluded by PLIP IOD.9: 1 residues within 4Å: Chain A: R.465 Ligand excluded by PLIP IOD.10: 3 residues within 4Å: Chain A: R.163, E.216 Chain D: R.96 Ligand excluded by PLIP IOD.11: 3 residues within 4Å: Chain A: S.110, R.113, R.171 Ligand excluded by PLIP IOD.13: 4 residues within 4Å: Chain B: S.39, L.40, V.141, R.182 Ligand excluded by PLIP IOD.15: 2 residues within 4Å: Chain C: R.84, F.85 Ligand excluded by PLIP IOD.16: 3 residues within 4Å: Chain B: T.83 Chain C: K.123, K.126 Ligand excluded by PLIP IOD.17: 1 residues within 4Å: Chain C: R.50 Ligand excluded by PLIP IOD.18: 2 residues within 4Å: Chain C: R.64, K.65 Ligand excluded by PLIP IOD.19: 2 residues within 4Å: Chain C: S.87, S.88 Ligand excluded by PLIP IOD.20: 2 residues within 4Å: Chain C: R.53, R.54 Ligand excluded by PLIP IOD.21: 2 residues within 4Å: Chain C: V.118, T.119 Ligand excluded by PLIP IOD.22: 4 residues within 4Å: Chain C: Q.121, K.122 Chain D: S.48, L.50 Ligand excluded by PLIP IOD.23: 2 residues within 4Å: Chain C: R.64 Chain D: T.31 Ligand excluded by PLIP IOD.24: 2 residues within 4Å: Chain D: G.49, E.53 Ligand excluded by PLIP IOD.25: 1 residues within 4Å: Chain D: R.41 Ligand excluded by PLIP

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.12: 4 residues within 4Å: Chain A: A.94, D.95, L.112, Q.143 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.95, A:Q.143

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.14: 1 residues within 4Å: Chain B: K.105 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, L. et al., Multisite Substrate Recognition in Asf1-Dependent Acetylation of Histone H3 K56 by Rtt109. Cell (2018)

Release Date

2018-07-25

Peptides

DNA damage response protein Rtt109, putative: A
Histone chaperone asf1: B
Histone H3: C
Histone H4: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

DNA damage response protein Rtt109, putative

Histone chaperone asf1

Histone H3

Histone H4

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