SMTL ID : 5o9t.1 (1 other biounit)

HsNMT1 in complex with CoA and acetylated-NCFSKPK peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

1 x 1IP- CYS- PHE- SER- LYS- PRO- ARG: 1IP-CYS-PHE-SER-LYS-PRO-ARG(Non-covalent)

1IP-CYS-PHE-SER-LYS-PRO-ARG.1: 30 residues within 4Å: Chain A: Y.86, V.87, E.88, D.89, D.91, M.93, F.94, F.96, Y.98, N.152, T.188, A.189, G.190, R.201, Y.202, H.204, F.217, S.218, Y.307, L.309, S.311, Y.326, I.375, G.376, D.377, G.378, N.379, L.380, Q.402 Ligands: MYA.2 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:D.89, A:F.94, A:F.96, A:L.309, A:Y.326, A:I.375 Hydrogen bonds: A:Y.86, A:D.90, A:D.91, A:Y.98, A:Y.98, A:T.188, A:T.188, A:R.201, A:R.201, A:Y.202, A:I.375, A:I.375, A:D.377, A:D.377, A:D.377, A:D.377, A:G.378, A:G.378 Water bridges: A:E.88, A:N.152, A:T.188, A:G.190

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

MYA.2: 32 residues within 4Å: Chain A: Y.23, Q.24, F.25, W.26, N.85, Y.86, V.87, I.151, N.152, F.153, L.154, C.155, V.156, R.161, S.162, K.163, R.164, V.165, A.166, P.167, I.170, T.174, V.177, H.178, I.182, F.183, A.185, Y.187, T.188, L.193, Y.385 Ligands: 1IP-CYS-PHE-SER-LYS-PRO-ARG.1 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:Y.86, A:V.87, A:I.151, A:I.151, A:I.151, A:L.154, A:L.154, A:L.154, A:V.156, A:I.170, A:V.177, A:A.185, A:Y.187, A:Y.187, A:Y.385 Hydrogen bonds: A:Q.24, A:F.25, A:W.26, A:F.153, A:L.154, A:L.154, A:V.156, A:R.161, A:R.161, A:S.162, A:R.164, A:V.165, A:A.166 Water bridges: A:K.163, A:K.163

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 9 residues within 4Å: Chain A: E.150, M.272, W.280, F.328, Y.329, L.399, V.400, L.401, Q.402 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.329, A:V.400, A:Q.402 GOL.4: 11 residues within 4Å: Chain A: P.32, K.195, P.196, V.197, Y.383, L.384, W.387, K.388, C.389, P.390, S.391 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:P.196, A:L.384, A:L.384, A:C.389, A:C.389 Water bridges: A:K.195, A:S.391

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

CL.5: 6 residues within 4Å: Chain A: L.67, D.68, L.69, R.108, W.112, H.117 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Castrec, B. et al., Structural and genomic decoding of human and plant myristoylomes reveals a definitive recognition pattern. Nat. Chem. Biol. (2018)

Release Date

2018-06-27

Peptides

Glycylpeptide N-tetradecanoyltransferase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glycylpeptide N-tetradecanoyltransferase 1

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