SMTL ID : 4c68.2 (2 other biounits)

Plasmodium vivax N-myristoyltransferase in complex with a peptidomimetic inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.38 Å

Oligo State

monomer

Ligands

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

DMS.1: 5 residues within 4Å: Chain A: E.133, F.255, W.263, I.381, L.383 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:E.133 pi-Cation interactions: A:W.263, A:W.263 DMS.6: 5 residues within 4Å: Chain A: F.79, Y.185, H.187, Y.308 Ligands: EN5.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.308 Water bridges: A:N.339 pi-Cation interactions: A:Y.185

1 x EN5: N-(10-aminodecanoyl)-L-seryl-N-(2-cyclohexylethyl)-L-lysinamide(Non-covalent)

EN5.2: 22 residues within 4Å: Chain A: V.70, D.72, D.74, F.77, F.79, N.135, T.171, G.173, Y.185, H.187, S.189, F.200, S.201, Y.216, G.356, E.357, G.358, D.359, G.360, L.384 Ligands: NHW.3, DMS.6 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:V.70, A:F.77, A:F.79, A:F.79, A:F.79, A:H.187, A:F.200, A:F.200 Hydrogen bonds: A:D.74, A:N.135, A:F.200, A:D.359, A:D.359, A:D.359, A:G.360, A:G.360, A:L.384 Water bridges: A:D.73

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

NHW.3: 35 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, I.165, W.166, Q.167, A.168, Y.170, T.171, A.172, L.176, Y.367 Ligands: EN5.2, MG.5 36 PLIP interactions: 36 interactions with chain A Hydrophobic interactions: A:W.5, A:W.5, A:Y.69, A:V.134, A:L.137, A:L.137, A:L.137, A:V.139, A:A.149, A:I.153, A:I.160, A:I.160, A:A.168, A:Y.170, 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:L.148, A:A.149 Water bridges: A:R.144, A:S.145, A:R.147, A:R.147, A:R.147, A:R.147 Salt bridges: A:R.147, A:R.147

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

CL.4: 3 residues within 4Å: Chain A: T.221, L.222, R.332 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 7 residues within 4Å: Chain A: L.143, R.144, S.145, K.146, R.147, L.148 Ligands: NHW.3 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:L.143

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Olaleye, T.O. et al., Peptidomimetic Inhibitors of N-Myristoyltransferase from Human Malaria and Leishmaniasis Parasites. Org.Biomol.Chem. (2014)

Release Date

2014-09-24

Peptides

GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE

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