SMTL ID : 4c2y.2 (1 other biounit)

Human N-myristoyltransferase (NMT1) with Myristoyl-CoA co-factor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

monomer

Ligands

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

MYA.1: 35 residues within 4Å: Chain A: R.29, Y.31, Q.32, F.33, W.34, N.93, Y.94, V.95, I.159, N.160, F.161, L.162, C.163, V.164, R.169, S.170, K.171, R.172, V.173, A.174, P.175, I.178, T.182, V.185, H.186, I.190, F.191, Q.192, A.193, Y.195, T.196, A.197, L.201, Y.393 Ligands: MG.2 36 PLIP interactions: 36 interactions with chain A Hydrophobic interactions: A:W.34, A:W.34, A:Y.94, A:V.95, A:I.159, A:I.159, A:L.162, A:L.162, A:V.164, A:I.178, A:I.178, A:V.185, A:A.193, A:Y.195, A:Y.195, A:Y.195, A:Y.393 Hydrogen bonds: A:R.29, A:Q.32, A:F.33, A:W.34, A:Y.94, A:L.162, A:L.162, A:V.164, A:R.169, A:R.169, A:S.170, A:R.172, A:V.173, A:A.174 Water bridges: A:S.170, A:R.172, A:R.172 Salt bridges: A:R.172, A:R.172

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 8 residues within 4Å: Chain A: V.164, L.168, R.169, S.170, K.171, R.172, V.173 Ligands: MYA.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:L.168

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.3: 6 residues within 4Å: Chain A: T.36, Q.37, P.38, E.53, K.56, R.179 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:T.36, A:T.36, A:Q.37 Water bridges: A:K.56, A:R.179, A:R.179 Salt bridges: A:K.56, A:R.179

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 11 residues within 4Å: Chain A: P.40, K.203, P.204, V.205, Y.391, L.392, W.395, K.396, C.397, P.398, S.399 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:P.204, A:L.392, A:L.392, A:W.395, A:C.397 Water bridges: A:K.203, A:S.399 GOL.5: 2 residues within 4Å: Chain A: P.63, W.72 3 PLIP interactions: 3 interactions with chain A Water bridges: A:P.63, A:W.72, A:W.72 GOL.6: 8 residues within 4Å: Chain A: F.104, Y.106, Y.210, Y.315, L.317, L.388, L.409, Q.410 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.210, A:Y.315, A:Q.410 Water bridges: A:N.160 GOL.7: 3 residues within 4Å: Chain A: L.121, Q.123, E.188 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.123 Water bridges: A:E.188, A:E.188, A:E.188

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thinon, E. et al., Global Profiling of Co- and Post-Translationally N-Myristoylated Proteomes in Human Cells. Nat.Commun. (2014)

Release Date

2014-10-01

Peptides

GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

GLYCYLPEPTIDE N-TETRADECANOYLTRANSFERASE 1

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