SMTL ID : 3os5.1

SET7/9-Dnmt1 K142me1 complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

monomer

Ligands

1 x THR- PRO- ARG- ARG- SER- MLZ- SER- ALA: Dnmt1(Non-covalent)

THR-PRO-ARG-ARG-SER-MLZ-SER-ALA.1: 24 residues within 4Å: Chain A: Y.135, V.145, D.146, R.148, D.149, W.150, N.153, G.154, N.155, T.156, L.157, S.158, H.183, Y.195, K.207, Y.225, G.226, Y.227, D.228, P.231, K.234, E.238 Ligands: EDO.7, SAH.9 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:L.157, A:Y.195, A:K.234 Hydrogen bonds: A:D.146, A:R.148, A:W.150, A:T.156, A:T.156, A:S.158, A:S.158, A:Y.195, A:K.207, A:K.207, A:Y.225, A:G.226, A:G.226, A:P.231, A:E.238 Water bridges: A:Y.227 Salt bridges: A:E.238

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.2: 6 residues within 4Å: Chain A: D.84, K.85, S.86, C.90, I.91, S.92 No protein-ligand interaction detected (PLIP)

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 4 residues within 4Å: Chain A: T.190, P.191, N.192, R.213 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.190, A:R.213 Water bridges: A:S.188 EDO.4: 5 residues within 4Å: Chain A: Y.107, A.109, E.110, F.121, D.218 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.107, A:E.110, A:D.218 EDO.5: 5 residues within 4Å: Chain A: E.118, N.172, H.173, K.184 Ligands: SAH.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.118, A:N.172, A:K.184 EDO.6: 3 residues within 4Å: Chain A: W.10, Y.12, G.68 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.12 EDO.7: 2 residues within 4Å: Chain A: D.146 Ligands: THR-PRO-ARG-ARG-SER-MLZ-SER-ALA.1 No protein-ligand interaction detected (PLIP)

1 x UNL: UNKNOWN LIGAND

UNL.8: 5 residues within 4Å: Chain A: P.14, D.15, D.196, M.197, R.210 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.196, A:R.210 Water bridges: A:D.15

1 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.9: 15 residues within 4Å: Chain A: I.113, A.116, G.117, E.118, N.155, H.183, K.184, A.185, N.186, H.187, Y.225, W.242, E.246 Ligands: THR-PRO-ARG-ARG-SER-MLZ-SER-ALA.1, EDO.5 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:E.118, A:E.118, A:N.186, A:H.187, A:H.187 Water bridges: A:G.154, A:G.154, A:N.155, A:N.172, A:H.183 Salt bridges: A:K.184 pi-Stacking: A:W.242, A:W.242

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Esteve, P.O. et al., A methylation and phosphorylation switch between an adjacent lysine and serine determines human DNMT1 stability. Nat.Struct.Mol.Biol. (2011)

Release Date

2010-12-15

Peptides

Histone-lysine N-methyltransferase SETD7: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Histone-lysine N-methyltransferase SETD7

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