SMTL ID : 5g1z.2 (2 other biounits)

Plasmodium vivax N-myristoyltransferase in complex with a quinoline inhibitor (compound 1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

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

NHW.1: 34 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, V.175, L.177, Y.368 Ligands: MG.4 36 PLIP interactions: 36 interactions with chain A Hydrophobic interactions: A:W.6, A:W.6, A:Y.70, A:V.71, A:L.138, A:L.138, A:L.138, A:V.140, A:I.154, 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:R.145, A:S.146, A:R.148, A:L.149, A:A.150 Water bridges: A:Y.3, A:Y.3, A:R.148, A:R.148, A:R.148 Salt bridges: A:R.148, A:R.148

1 x U53: ethyl 4-(2-cyanoethylsulfanyl)-6-methoxy-quinoline-3-carboxylate(Non-covalent)

U53.2: 12 residues within 4Å: Chain A: V.71, E.72, D.73, F.78, F.80, Y.186, H.188, F.201, S.294, L.305, Y.309, N.340 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:V.71, A:D.73, A:F.78, A:F.80, A:Y.186, A:H.188, A:F.201, A:Y.309 Hydrogen bonds: A:S.294 Water bridges: A:Y.309, A:Y.309 Salt bridges: A:H.188 pi-Stacking: A:F.80

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

DMS.3: 4 residues within 4Å: Chain A: E.134, F.256, W.264, I.382 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:E.134 pi-Cation interactions: A:W.264, A:W.264

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.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:L.144

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

CL.5: 2 residues within 4Å: Chain A: Y.40, K.155 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goncalves, V. et al., Structure-guided optimization of quinoline inhibitors of Plasmodium N-myristoyltransferase. Medchemcomm (2017)

Release Date

2017-02-15

Peptides

GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE

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