SMTL ID : 6wk1.3 (2 other biounits)

SETD3 in Complex with an Actin Peptide with His73 Replaced with Methionine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

hetero-1-1-mer

Ligands

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

SAH.1: 18 residues within 4Å: Chain B: R.75, E.103, E.104, F.106, P.180, T.253, R.254, D.275, M.276, C.277, N.278, H.279, Y.313, S.325, F.327, F.329 Ligands: EDO.14, EDO.15 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:F.106, B:F.106, B:N.278, B:H.279, B:H.279, B:Y.313 Water bridges: B:R.75, B:E.104, B:E.104, B:T.253, B:S.325, B:G.326 Salt bridges: B:R.75, B:R.254 pi-Stacking: B:F.327, B:F.327

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

EDO.2: 4 residues within 4Å: Chain A: E.7 Chain B: I.284, G.314, T.315 Ligand excluded by PLIP EDO.3: 4 residues within 4Å: Chain B: A.360, I.408, F.409, L.411 Ligand excluded by PLIP EDO.4: 4 residues within 4Å: Chain B: E.182, Y.183, D.184 Ligands: EDO.10 Ligand excluded by PLIP EDO.5: 4 residues within 4Å: Chain B: E.103, V.459 Ligands: EDO.14, EDO.15 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain B: L.341, G.342, F.388, R.433 Ligand excluded by PLIP EDO.7: 3 residues within 4Å: Chain B: M.83, K.84, S.87 Ligand excluded by PLIP EDO.8: 9 residues within 4Å: Chain B: S.317, N.318, A.319, D.335, R.336, L.467, G.470, E.471, I.474 Ligand excluded by PLIP EDO.9: 3 residues within 4Å: Chain B: H.334, R.336, H.371 Ligand excluded by PLIP EDO.10: 4 residues within 4Å: Chain B: P.180, S.181, E.182 Ligands: EDO.4 Ligand excluded by PLIP EDO.11: 4 residues within 4Å: Chain B: Q.64, Y.221, S.238, F.239 Ligand excluded by PLIP EDO.12: 8 residues within 4Å: Chain B: R.386, H.398, R.407, T.410, L.411, F.416, P.417, V.418 Ligand excluded by PLIP EDO.13: 2 residues within 4Å: Chain B: W.122, R.294 Ligand excluded by PLIP EDO.14: 8 residues within 4Å: Chain B: E.104, D.184, G.326, F.327, M.463 Ligands: SAH.1, EDO.5, EDO.15 Ligand excluded by PLIP EDO.15: 7 residues within 4Å: Chain B: F.327, F.328, V.459, M.463 Ligands: SAH.1, EDO.5, EDO.14 Ligand excluded by PLIP EDO.16: 5 residues within 4Å: Chain B: R.54, E.58, R.61, F.189, R.245 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain A: L.2 Chain B: T.285, G.287, E.296, V.298 Ligand excluded by PLIP EDO.18: 6 residues within 4Å: Chain B: L.400, G.401, D.402, S.403, A.404, R.407 Ligand excluded by PLIP EDO.19: 1 residues within 4Å: Chain B: K.102 Ligand excluded by PLIP EDO.20: 5 residues within 4Å: Chain B: Q.201, A.202, D.205, A.319, K.338 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dai, S. et al., Characterization of SETD3 methyltransferase-mediated protein methionine methylation. J.Biol.Chem. (2020)

Release Date

2020-06-17

Peptides

Actin, cytoplasmic 2: A
Actin-histidine N-methyltransferase: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
Z

B
B

Actin, cytoplasmic 2

Actin-histidine N-methyltransferase

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