SMTL ID : 6bpi.1

Crystal structure of SETDB1 Tudor domain with aryl triazole fragment peptide conjugates

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

monomer

Ligands

1 x MLY- SER- THR- E2G: MLY-SER-THR-E2G(Non-covalent)

MLY-SER-THR-E2G.1: 19 residues within 4Å: Chain A: F.107, D.110, G.111, Y.112, A.113, C.140, F.143, I.144, W.169, F.190, D.193, R.195, E.197, W.198, I.199, Y.200, S.203, R.205 Ligands: SO4.5 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.107, A:F.143, A:F.143, A:F.143, A:I.144, A:W.169 Hydrogen bonds: A:G.111, A:G.111, A:R.195, A:E.197, A:E.197, A:Y.200, A:S.203, A:R.205 Salt bridges: A:D.193

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

SO4.2: 6 residues within 4Å: Chain A: K.40, L.52, L.53, S.54, H.57 Ligands: EDO.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.54 Salt bridges: A:K.40, A:H.57 SO4.3: 2 residues within 4Å: Chain A: H.25, K.26 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.26 Water bridges: A:H.25, A:H.25, A:K.26, A:N.47 Salt bridges: A:H.25 SO4.4: 2 residues within 4Å: Chain A: R.14, D.61 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.61 Salt bridges: A:R.14 SO4.5: 2 residues within 4Å: Chain A: R.195 Ligands: MLY-SER-THR-E2G.1 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.195

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

EDO.6: 4 residues within 4Å: Chain A: Y.70, S.73, P.127, T.131 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.68 EDO.7: 6 residues within 4Å: Chain A: K.18, K.19, R.20, L.53, H.57 Ligands: SO4.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.57 Water bridges: A:K.18 EDO.8: 4 residues within 4Å: Chain A: L.158, L.159, K.160, V.181 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.160 Water bridges: A:L.159

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

UNX.9: 3 residues within 4Å: Chain A: K.39, Y.41, R.126 No protein-ligand interaction detected (PLIP) UNX.10: 3 residues within 4Å: Chain A: P.65, A.66, Q.118 No protein-ligand interaction detected (PLIP) UNX.11: 2 residues within 4Å: Chain A: R.187, C.196 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

MADER, P. et al., Crystal structure of SETDB1 Tudor domain with aryl triazole fragment peptide conjugates. to be published

Release Date

2017-12-27

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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