SMTL ID : 6ox5.1

A SETD3 Mutant (N255A) in Complex with an Actin Peptide with His73 Replaced with Lysine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-mer

Ligands

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

SAH.1: 18 residues within 4Å: Chain A: K.8 Chain B: R.80, E.108, E.109, F.111, P.185, T.258, R.259, D.280, M.281, C.282, N.283, H.284, Y.318, S.330, F.332, F.334 Ligands: EDO.2 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:F.111, B:F.111, B:N.283, B:H.284, B:H.284, B:G.331 Water bridges: B:R.80, B:E.108, B:E.109, B:E.109, B:T.258, B:T.258, B:T.258, B:S.330 Salt bridges: B:R.80, B:R.259 pi-Stacking: B:F.332, B:F.332

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

EDO.2: 5 residues within 4Å: Chain B: E.109, P.185, E.187, Y.188 Ligands: SAH.1 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.109 Water bridges: B:F.111, B:T.258 EDO.3: 3 residues within 4Å: Chain B: Y.201, T.448, R.473 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.473, B:R.473 Water bridges: B:R.200, B:R.200 EDO.4: 6 residues within 4Å: Chain B: I.30, Q.69, Y.226, S.243, F.244, T.245 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.69, B:Y.226, B:S.243, B:F.244 EDO.5: 6 residues within 4Å: Chain B: L.405, G.406, D.407, S.408, A.409, R.412 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.406, B:S.408, B:A.409, B:R.412, B:R.412 EDO.6: 4 residues within 4Å: Chain B: D.340, F.377, G.475, E.478 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.478, B:E.478 Water bridges: B:N.323, B:N.336 EDO.7: 6 residues within 4Å: Chain B: F.76, R.170, I.181, L.184, P.185, S.186 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.170, B:R.170, B:I.181, B:L.184 EDO.8: 5 residues within 4Å: Chain B: D.86, K.89, W.90, E.93, P.179 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.86, B:E.93 EDO.9: 3 residues within 4Å: Chain B: R.130, T.135, E.137 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.130, B:T.135

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dai, S. et al., Structural basis for the target specificity of actin histidine methyltransferase SETD3. Nat Commun (2019)

Release Date

2019-08-21

Peptides

Actin Peptide: A
Actin-histidine N-methyltransferase: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
Y

B
A

Actin Peptide

Actin-histidine N-methyltransferase

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