SMTL ID : 6tw5.1 (2 other biounits)

Plasmodium vivax N-myristoyltransferase with bound indazole inhibitor IMP-917

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x 9M2: 1-[5-[4-fluoranyl-2-[2-(1,3,5-trimethylpyrazol-4-yl)ethoxy]phenyl]-2~{H}-indazol-3-yl]-~{N},~{N}-dimethyl-methanamine(Non-covalent)

9M2.1: 20 residues within 4Å: Chain A: V.74, E.75, D.76, F.81, R.82, F.83, Y.85, N.139, T.175, G.177, Y.189, H.191, S.297, Y.312, N.343, A.344, L.345, L.366, L.387, L.388 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:V.74, A:F.83, A:F.83, A:Y.189, A:Y.189, A:Y.189, A:Y.189, A:L.345, A:L.366 Hydrogen bonds: A:Y.85, A:T.175, A:G.177, A:S.297 Water bridges: A:N.139 pi-Stacking: A:Y.312

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

MYA.2: 34 residues within 4Å: Chain A: Y.6, K.7, F.8, W.9, N.72, Y.73, V.74, V.138, N.139, F.140, L.141, C.142, V.143, R.148, S.149, K.150, R.151, L.152, A.153, P.154, I.157, T.161, I.164, N.165, W.170, Q.171, A.172, Y.174, T.175, A.176, V.178, L.180, Y.371 Ligands: MG.3 35 PLIP interactions: 35 interactions with chain A Hydrophobic interactions: A:W.9, A:W.9, A:Y.73, A:V.74, A:V.138, A:L.141, A:L.141, A:V.143, A:I.157, A:I.164, A:I.164, A:A.172, A:Y.174, A:Y.371 Hydrogen bonds: A:K.7, A:F.8, A:W.9, A:F.140, A:L.141, A:L.141, A:V.143, A:R.148, A:S.149, A:R.151, A:L.152, A:A.153 Water bridges: A:Y.6, A:R.148, A:R.148, A:R.151, A:R.151, A:R.151, A:R.151 Salt bridges: A:R.151, A:R.151

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 7 residues within 4Å: Chain A: L.147, R.148, S.149, K.150, R.151, L.152 Ligands: MYA.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:L.147

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

DMS.4: 4 residues within 4Å: Chain A: E.137, F.259, W.267, I.385 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:E.137 pi-Cation interactions: A:W.267, A:W.267

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

CL.5: 2 residues within 4Å: Chain A: Y.43, K.158 Ligand excluded by PLIP

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

SO4.6: 2 residues within 4Å: Chain A: R.188, K.351 4 PLIP interactions: 4 interactions with chain A Water bridges: A:E.361, A:E.361 Salt bridges: A:R.188, A:K.351 SO4.7: 7 residues within 4Å: Chain A: N.273, Y.276, S.294, N.309, N.337, N.338, F.339 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.273, A:Y.276, A:S.294

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brannigan, J.A., Plasmodium vivax N-myristoyltransferase with bound indazole inhibitor IMP-917. To Be Published

Release Date

2021-07-21

Peptides

Glycylpeptide N-tetradecanoyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Glycylpeptide N-tetradecanoyltransferase

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