SMTL ID : 4b13.3 (2 other biounits)

Plasmodium vivax N-myristoyltransferase with a bound benzofuran inhibitor (compound 25)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

monomer

Ligands

1 x X25: 4-{[2-(3-BENZYL-1,2,4-OXADIAZOL-5-YL)-3-METHYL-1-BENZOFURAN-4-YL]OXY}PIPERIDINE(Non-covalent)

X25.1: 17 residues within 4Å: Chain A: V.71, E.72, D.73, F.78, F.80, Y.82, T.172, Y.186, H.188, Y.290, S.294, Y.309, N.340, L.342, L.363, L.384, L.385 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:D.73, A:F.78, A:F.80, A:Y.186, A:N.340, A:L.342, A:L.342, A:L.363 Water bridges: A:N.136, A:T.172 pi-Stacking: A:F.80, A:Y.186, A:Y.186, A:Y.309

1 x NHW: 2-OXOPENTADECYL-COA(Non-covalent)

NHW.2: 33 residues within 4Å: Chain A: Y.3, K.4, F.5, W.6, N.69, Y.70, V.71, V.135, N.136, F.137, L.138, C.139, V.140, R.145, S.146, K.147, R.148, L.149, A.150, P.151, I.154, T.158, I.161, N.162, W.167, Q.168, A.169, Y.171, T.172, A.173, L.177, Y.368 Ligands: MG.4 34 PLIP interactions: 34 interactions with chain A Hydrophobic interactions: A:Y.70, A:L.138, A:L.138, A:V.140, A:A.150, A:I.154, A:I.154, A:T.158, A:I.161, A:I.161, A:A.169, A:Y.171, A:Y.171, A:Y.368 Hydrogen bonds: A:K.4, A:F.5, A:W.6, A:Y.70, A:F.137, A:L.138, A:L.138, A:V.140, A:R.145, A:S.146, A:K.147, A:R.148, A:L.149, A:A.150 Water bridges: A:Y.3, A:R.148, A:R.148, A:R.148 Salt bridges: A:R.148, A:R.148

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 2 residues within 4Å: Chain A: Y.40, K.155 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 7 residues within 4Å: Chain A: L.144, R.145, S.146, K.147, R.148, L.149 Ligands: NHW.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:L.144

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Yu, Z. et al., Design and Synthesis of Inhibitors of Plasmodium Falciparum N-Myristoyltransferase, a Promising Target for Antimalarial Drug Discovery. J.Med.Chem. (2012)

Release Date

2012-10-17

Peptides

GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE

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