SMTL ID : 5npq.1 (1 other biounit)

Human N-myristoyltransferase 1 (MNT1) with Myristoyl-CoA analogue X10 bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.37 Å

Oligo State

monomer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 10 residues within 4Å: Chain A: P.21, K.184, P.185, V.186, Y.372, L.373, W.376, K.377, C.378, S.380 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.373, A:L.373, A:C.378, A:C.378 Water bridges: A:K.184 GOL.2: 9 residues within 4Å: Chain A: E.139, P.259, M.261, W.269, F.317, Y.318, L.388, V.389, Q.391 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.318, A:Q.391, A:Q.391 Water bridges: A:W.269

1 x 94Q: ~{S}-[2-[3-[[(2~{S})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl] 9-(3-but-3-ynyl-1,2-diazirin-3-yl)nonanethioate(Non-covalent)

94Q.3: 36 residues within 4Å: Chain A: Y.12, Q.13, F.14, W.15, N.74, Y.75, V.76, I.140, N.141, F.142, L.143, C.144, V.145, R.150, S.151, K.152, R.153, V.154, A.155, P.156, I.159, I.162, T.163, V.166, H.167, I.171, F.172, Q.173, A.174, Y.176, T.177, A.178, V.180, L.182, Y.374 Ligands: MG.4 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:I.140, A:L.143, A:L.143, A:V.145, A:I.159, A:I.159, A:V.166, A:A.174, A:Y.176, A:Y.176, A:Y.176, A:Y.374, A:Y.374 Hydrogen bonds: A:Q.13, A:F.14, A:W.15, A:F.142, A:L.143, A:V.145, A:S.151, A:R.153, A:V.154, A:A.155, A:T.163 Salt bridges: A:R.153, A:R.153

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 8 residues within 4Å: Chain A: V.145, L.149, R.150, S.151, K.152, R.153, V.154 Ligands: 94Q.3 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:L.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shen, M. et al., Human N-myristoyltransferase 1 (MNT1) with Myristoyl-CoA analogue X10 bound. To be published

Release Date

2018-05-30

Peptides

Glycylpeptide N-tetradecanoyltransferase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glycylpeptide N-tetradecanoyltransferase 1

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