SMTL ID : 5t5g.1

human SETD8 in complex with MS2177

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

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

UNX.1: 2 residues within 4Å: Chain A: H.108 Chain B: A.72 No protein-ligand interaction detected (PLIP) UNX.2: 4 residues within 4Å: Chain A: E.11, I.15, D.49, F.50 No protein-ligand interaction detected (PLIP) UNX.3: 3 residues within 4Å: Chain A: R.47, R.133, D.134 No protein-ligand interaction detected (PLIP) UNX.4: 2 residues within 4Å: Chain A: K.43, Q.44 No protein-ligand interaction detected (PLIP) UNX.5: 1 residues within 4Å: Chain A: T.42 No protein-ligand interaction detected (PLIP) UNX.6: 3 residues within 4Å: Chain A: N.107, H.108 Ligands: 75P.7 No protein-ligand interaction detected (PLIP) UNX.8: 2 residues within 4Å: Chain A: A.72 Chain B: H.108 No protein-ligand interaction detected (PLIP) UNX.9: 4 residues within 4Å: Chain B: E.11, I.15, D.49, F.50 No protein-ligand interaction detected (PLIP) UNX.10: 3 residues within 4Å: Chain B: R.47, R.133, D.134 No protein-ligand interaction detected (PLIP) UNX.11: 2 residues within 4Å: Chain B: K.43, Q.44 No protein-ligand interaction detected (PLIP) UNX.12: 1 residues within 4Å: Chain B: T.42 No protein-ligand interaction detected (PLIP) UNX.13: 3 residues within 4Å: Chain B: N.107, H.108 Ligands: 75P.14 No protein-ligand interaction detected (PLIP)

2 x 75P: 7-(2-aminoethoxy)-6-methoxy-2-(pyrrolidin-1-yl)-N-[5-(pyrrolidin-1-yl)pentyl]quinazolin-4-amine(Non-covalent)

75P.7: 18 residues within 4Å: Chain A: Y.54, C.79, Y.80, M.81, Y.82, R.104, L.105, I.106, N.107, T.116, L.127, L.129, Y.143, Y.145 Chain B: E.68, G.78, M.81 Ligands: UNX.6 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.54, A:Y.80, A:T.116, A:L.127, A:L.129, A:Y.143 Hydrogen bonds: A:C.79 Salt bridges: B:E.68 75P.14: 18 residues within 4Å: Chain A: E.68, G.78, M.81 Chain B: Y.54, C.79, Y.80, M.81, Y.82, R.104, L.105, I.106, N.107, T.116, L.127, L.129, Y.143, Y.145 Ligands: UNX.13 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.54, B:Y.80, B:T.116, B:L.127, B:L.129, B:Y.143 Hydrogen bonds: B:C.79 Salt bridges: A:E.68

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Butler, K.V. et al., Structure-Based Design of a Covalent Inhibitor of the SET Domain-Containing Protein 8 (SETD8) Lysine Methyltransferase. J. Med. Chem. (2016)

Release Date

2016-09-28

Peptides

N-lysine methyltransferase KMT5A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

N-lysine methyltransferase KMT5A

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