SMTL ID : 4bbh.1 (2 other biounits)

Plasmodium vivax N-myristoyltransferase with a bound benzothiophene inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.63 Å

Oligo State

monomer

Ligands

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.1: 6 residues within 4Å: Chain A: E.133, F.255, W.263, I.381, L.383, L.384 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:E.133 pi-Cation interactions: A:W.263

1 x NHW: 2-oxopentadecyl-CoA(Non-covalent)

NHW.2: 34 residues within 4Å: Chain A: Y.2, K.3, F.4, W.5, N.68, Y.69, V.70, V.134, N.135, F.136, L.137, C.138, V.139, R.144, S.145, K.146, R.147, L.148, A.149, P.150, I.153, T.157, I.160, N.161, W.166, Q.167, A.168, Y.170, T.171, A.172, V.174, L.176, Y.367 Ligands: MG.6 32 PLIP interactions: 32 interactions with chain A Hydrophobic interactions: A:W.5, A:W.5, A:Y.69, A:V.70, A:V.134, A:V.134, A:L.137, A:L.137, A:L.137, A:V.139, A:I.153, A:I.160, A:I.160, A:A.168, A:Y.170, A:Y.367 Hydrogen bonds: A:K.3, A:F.4, A:W.5, A:F.136, A:L.137, A:L.137, A:V.139, A:R.144, A:S.145, A:R.147, A:A.149 Water bridges: A:S.145, A:R.147, A:R.147 Salt bridges: A:R.147, A:R.147

1 x YBN: 3-methoxybenzyl 3-(piperidin-4-yloxy)-1-benzothiophene-2-carboxylate(Non-covalent)

YBN.3: 18 residues within 4Å: Chain A: D.72, F.77, F.79, Y.81, T.171, Y.185, H.187, Y.289, S.293, Y.308, S.309, N.339, A.340, L.341, L.362, V.382, L.383, L.384 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.79, A:Y.185, A:N.339, A:L.341, A:L.341, A:V.382 Hydrogen bonds: A:Y.81 Water bridges: A:T.171, A:T.171 pi-Stacking: A:Y.308, A:Y.308

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

SO4.4: 2 residues within 4Å: Chain A: R.184, K.347 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.184, A:K.347

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

CL.5: 2 residues within 4Å: Chain A: Y.39, K.154 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 7 residues within 4Å: Chain A: L.143, R.144, S.145, K.146, R.147, L.148 Ligands: NHW.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:L.143

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rackham, M.D. et al., Discovery of Novel and Ligand-Efficient Inhibitors of Plasmodium Falciparum and Plasmodium Vivax N-Myristoyltransferase. J.Med.Chem. (2013)

Release Date

2012-12-05

Peptides

GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE

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