SMTL ID : 6qd9.1

Leishmania major N-myristoyltransferase in complex with thienopyrimidine inhibitor IMP-0000065

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.46 Å

Oligo State

monomer

Ligands

1 x MYA: TETRADECANOYL-COA(Non-covalent)

MYA.1: 33 residues within 4Å: Chain A: H.12, A.13, F.14, W.15, N.79, Y.80, V.81, I.166, N.167, F.168, L.169, C.170, V.171, R.176, E.177, K.178, R.179, L.180, A.181, P.182, I.185, T.189, V.192, N.193, W.198, Q.199, A.200, Y.202, T.203, V.206, L.208, Y.404 Ligands: MG.3 38 PLIP interactions: 38 interactions with chain A Hydrophobic interactions: A:W.15, A:W.15, A:Y.80, A:V.81, A:I.166, A:L.169, A:L.169, A:L.169, A:V.171, A:I.185, A:I.185, A:V.192, A:A.200, A:Y.202, A:Y.202, A:Y.404, A:Y.404 Hydrogen bonds: A:A.13, A:F.14, A:W.15, A:Y.80, A:F.168, A:L.169, A:L.169, A:V.171, A:R.176, A:E.177, A:R.179, A:L.180, A:A.181 Water bridges: A:A.11, A:H.12, A:R.179, A:R.179, A:R.179 Salt bridges: A:H.12, A:R.179, A:R.179

1 x HWT: 3-[[2-[3-(dimethylamino)propyl-methyl-amino]thieno[3,2-d]pyrimidin-4-yl]-methyl-amino]propanenitrile(Non-covalent)

HWT.2: 13 residues within 4Å: Chain A: F.90, Y.92, N.167, T.203, G.205, Y.217, H.219, I.328, Y.345, G.397, H.398, M.420, L.421 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.217 Hydrogen bonds: A:T.203, A:Y.345, A:H.398 Water bridges: A:N.167 pi-Stacking: A:Y.217

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 7 residues within 4Å: Chain A: L.175, R.176, E.177, K.178, R.179, L.180 Ligands: MYA.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:L.175

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bell, A.S. et al., Novel Thienopyrimidine Inhibitors of Leishmania N -Myristoyltransferase with On-Target Activity in Intracellular Amastigotes. J.Med.Chem. (2020)

Release Date

2020-05-06

Peptides

Glycylpeptide N-tetradecanoyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glycylpeptide N-tetradecanoyltransferase

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