SMTL ID : 6qdh.1

Leishmania major N-myristoyltransferase in complex with quinazoline inhibitor IMP-0000906

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

monomer

Ligands

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

MYA.1: 35 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, A.204, V.206, L.208, Y.404 Ligands: HZ8.4, MG.5 37 PLIP interactions: 37 interactions with chain A Hydrophobic interactions: A:W.15, A:W.15, A:Y.80, A:V.81, A:I.166, A:I.166, A:L.169, A:L.169, A:V.171, A:A.181, 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 Salt bridges: A:H.12, A:R.179, A:R.179

1 x HXQ: 4-[ethyl(methyl)amino]-2-[methyl-(1-methylpiperidin-4-yl)amino]-~{N}-(1,3,5-trimethylpyrazol-4-yl)quinazoline-6-sulfonamide(Non-covalent)

HXQ.2: 21 residues within 4Å: Chain A: Y.80, V.81, D.83, F.90, Y.92, N.167, G.205, Y.217, H.219, F.232, I.328, Y.345, N.376, G.395, D.396, G.397, H.398, L.399, L.421 Ligands: HZ5.3, HZ8.4 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.90, A:Y.217, A:F.232, A:L.399 Hydrogen bonds: A:Y.345, A:D.396, A:D.396, A:D.396, A:G.397 pi-Stacking: A:Y.217, A:Y.217

1 x HZ5: ~{N}-(1,3,5-trimethylpyrazol-4-yl)methanesulfonamide(Non-covalent)

HZ5.3: 11 residues within 4Å: Chain A: V.81, E.82, D.83, F.88, R.89, F.90, F.232, S.330, L.341 Ligands: HXQ.2, HZ8.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:D.83, A:F.88, A:F.90, A:F.232, A:L.341 Hydrogen bonds: A:S.330

1 x HZ8: ~{N}4-ethyl-~{N}2,~{N}4-dimethyl-~{N}2-(1-methylpiperidin-4-yl)quinazoline-2,4-diamine(Non-covalent)

HZ8.4: 15 residues within 4Å: Chain A: Y.80, F.90, Y.92, T.203, G.205, Y.217, I.328, Y.345, N.376, G.397, H.398, L.399 Ligands: MYA.1, HXQ.2, HZ5.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.90, A:Y.217, A:Y.217, A:Y.345, A:L.399 Hydrogen bonds: A:Y.345 pi-Stacking: A:Y.217, A:Y.217

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 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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