SMTL ID : 5ke3.1

Crystal structure of SETDB1 Tudor domain in complex with fragment MRT0181a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x 6S5: (S)-N-(furan-2-ylmethyl)-1-(1,2,3,4-tetrahydroisoquinoline-3-carbonyl)piperidine-4-carboxamide(Non-covalent)

6S5.1: 7 residues within 4Å: Chain A: W.169, W.174, F.190, D.193, R.195, C.196, E.197 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.190, A:F.190, A:D.193, A:E.197 Hydrogen bonds: A:D.193, A:R.195 Water bridges: A:R.195 pi-Stacking: A:W.169, A:W.169, A:W.174, A:W.174, A:F.190

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

BME.2: 3 residues within 4Å: Chain A: R.187, L.189, C.196 No protein-ligand interaction detected (PLIP)

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

SO4.3: 3 residues within 4Å: Chain A: W.174, K.175, D.192 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.175 Water bridges: A:D.192 SO4.4: 5 residues within 4Å: Chain A: K.40, L.52, L.53, S.54, H.57 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.54 Water bridges: A:S.54, A:S.54 Salt bridges: A:K.40, A:H.57 SO4.5: 3 residues within 4Å: Chain A: T.117, Q.118, S.119 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.117, A:S.119, A:S.119 Water bridges: A:Q.118, A:Q.118 SO4.6: 2 residues within 4Å: Chain A: H.25, K.26 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.26 Water bridges: A:H.25, A:H.25, A:H.25, A:H.25, A:K.26, A:N.47 Salt bridges: A:H.25

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

UNX.7: 1 residues within 4Å: Chain A: R.14 No protein-ligand interaction detected (PLIP) UNX.8: 2 residues within 4Å: Chain A: R.20, S.51 No protein-ligand interaction detected (PLIP) UNX.9: 4 residues within 4Å: Chain A: K.39, Y.41, S.54, G.55 No protein-ligand interaction detected (PLIP) UNX.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.11: 3 residues within 4Å: Chain A: L.102, R.103, T.117 No protein-ligand interaction detected (PLIP) UNX.12: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.13: 2 residues within 4Å: Chain A: G.111, C.140 No protein-ligand interaction detected (PLIP) UNX.14: 1 residues within 4Å: Chain A: K.194 No protein-ligand interaction detected (PLIP) UNX.15: 4 residues within 4Å: Chain A: I.165, K.166, E.207, P.208 No protein-ligand interaction detected (PLIP) UNX.16: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iqbal, A. et al., Crystal structure of SETDB1 Tudor domain in complex with fragment MRT0181a. to be published

Release Date

2016-08-03

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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