SMTL ID : 5qt1.1

PanDDA analysis group deposition -- Partial occupancy interpretation of PanDDA event map: SETDB1 in complex with FMOMB000017a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

monomer

Ligands

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.1: 6 residues within 4Å: Chain A: K.29, K.30, R.31, K.33, L.64, H.68 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.33 Water bridges: A:K.29 DMS.2: 5 residues within 4Å: Chain A: W.180, W.185, F.201, D.204 Ligands: UNX.40 4 PLIP interactions: 4 interactions with chain A Water bridges: A:D.204 Salt bridges: A:D.204 pi-Cation interactions: A:W.180, A:W.185

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

EDO.3: 3 residues within 4Å: Chain A: S.84, P.138, T.142 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.84

1 x DSJ: 1-(4-amino-2-hydroxyphenyl)ethan-1-one(Non-covalent)

DSJ.4: 10 residues within 4Å: Chain A: F.118, F.119, G.122, Y.123, A.124, C.151, F.154, I.155, Y.211 Ligands: UNX.32 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.118, A:F.154, A:F.154, A:I.155 Hydrogen bonds: A:F.119, A:Y.123, A:C.151

38 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.5: 3 residues within 4Å: Chain A: K.30, R.31, S.62 Ligand excluded by PLIP UNX.6: 1 residues within 4Å: Chain A: K.140 Ligand excluded by PLIP UNX.7: 1 residues within 4Å: Chain A: R.188 Ligand excluded by PLIP UNX.8: 2 residues within 4Å: Chain A: A.77, L.80 Ligand excluded by PLIP UNX.9: 2 residues within 4Å: Chain A: R.114, T.128 Ligand excluded by PLIP UNX.10: 2 residues within 4Å: Chain A: L.170, K.171 Ligand excluded by PLIP UNX.11: 3 residues within 4Å: Chain A: T.128, Q.129, S.130 Ligand excluded by PLIP UNX.12: 3 residues within 4Å: Chain A: L.64, S.65, H.68 Ligand excluded by PLIP UNX.13: 7 residues within 4Å: Chain A: K.29, W.35, R.85, A.100, D.120 Ligands: UNX.14, UNX.15 Ligand excluded by PLIP UNX.14: 5 residues within 4Å: Chain A: N.67, R.85, I.135, D.145 Ligands: UNX.13 Ligand excluded by PLIP UNX.15: 4 residues within 4Å: Chain A: K.29, H.68, D.145 Ligands: UNX.13 Ligand excluded by PLIP UNX.16: 6 residues within 4Å: Chain A: K.50, Y.52, S.65, G.66 Ligands: UNX.17, UNX.18 Ligand excluded by PLIP UNX.17: 4 residues within 4Å: Chain A: K.50, Y.52, R.137 Ligands: UNX.16 Ligand excluded by PLIP UNX.18: 3 residues within 4Å: Chain A: N.67, R.137 Ligands: UNX.16 Ligand excluded by PLIP UNX.19: 2 residues within 4Å: Chain A: G.194 Ligands: UNX.20 Ligand excluded by PLIP UNX.20: 3 residues within 4Å: Chain A: K.110 Ligands: UNX.19, UNX.31 Ligand excluded by PLIP UNX.21: 4 residues within 4Å: Chain A: S.125, Y.126, L.196 Ligands: UNX.22 Ligand excluded by PLIP UNX.22: 4 residues within 4Å: Chain A: D.193, L.196, W.209 Ligands: UNX.21 Ligand excluded by PLIP UNX.23: 1 residues within 4Å: Chain A: W.184 Ligand excluded by PLIP UNX.24: 2 residues within 4Å: Chain A: E.12, N.13 Ligand excluded by PLIP UNX.25: 4 residues within 4Å: Chain A: K.30, T.32, T.34, H.36 Ligand excluded by PLIP UNX.26: 5 residues within 4Å: Chain A: K.89, Y.90, K.91, S.125, V.127 Ligand excluded by PLIP UNX.27: 2 residues within 4Å: Chain A: L.139, K.140 Ligand excluded by PLIP UNX.28: 4 residues within 4Å: Chain A: K.30, F.56, D.57, N.58 Ligand excluded by PLIP UNX.29: 2 residues within 4Å: Chain A: Q.174, L.175 Ligand excluded by PLIP UNX.30: 3 residues within 4Å: Chain A: P.163, N.164, R.165 Ligand excluded by PLIP UNX.31: 3 residues within 4Å: Chain A: D.193, G.194 Ligands: UNX.20 Ligand excluded by PLIP UNX.32: 4 residues within 4Å: Chain A: I.210, Y.211 Ligands: DSJ.4, UNX.33 Ligand excluded by PLIP UNX.33: 6 residues within 4Å: Chain A: G.122, Y.123, A.124, W.209, I.210 Ligands: UNX.32 Ligand excluded by PLIP UNX.34: 4 residues within 4Å: Chain A: R.85, I.135, P.138 Ligands: UNX.42 Ligand excluded by PLIP UNX.35: 1 residues within 4Å: Chain A: W.97 Ligand excluded by PLIP UNX.36: 3 residues within 4Å: Chain A: N.67, H.68, D.145 Ligand excluded by PLIP UNX.37: 4 residues within 4Å: Chain A: E.105, N.108, K.110, N.111 Ligand excluded by PLIP UNX.38: 3 residues within 4Å: Chain A: R.25, Y.71, D.72 Ligand excluded by PLIP UNX.39: 1 residues within 4Å: Chain A: R.25 Ligand excluded by PLIP UNX.40: 3 residues within 4Å: Chain A: W.180, F.201 Ligands: DMS.2 Ligand excluded by PLIP UNX.41: 3 residues within 4Å: Chain A: E.179, E.181, R.216 Ligand excluded by PLIP UNX.42: 5 residues within 4Å: Chain A: L.80, R.85, V.86, P.134 Ligands: UNX.34 Ligand excluded by PLIP

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.43: 2 residues within 4Å: Chain A: H.36, K.37 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.37 Water bridges: A:H.36, A:H.36, A:K.37 Salt bridges: A:H.36 SO4.44: 1 residues within 4Å: Chain A: R.31 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.31

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Harding, R.J. et al., PanDDA analysis group deposition. To Be Published

Release Date

2019-08-21

Peptides

Histone-lysine N-methyltransferase SETDB1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Histone-lysine N-methyltransferase SETDB1

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