SMTL ID : 1iid.1

Crystal Structure of Saccharomyces cerevisiae N-myristoyltransferase with Bound S-(2-oxo)pentadecylCoA and the Octapeptide GLYASKLA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x GLY- LEU- TYR- ALA- SER- LYS- LEU- ALA: Octapeptide GLYASKLA(Non-covalent)

GLY-LEU-TYR-ALA-SER-LYS-LEU-ALA.1: 16 residues within 4Å: Chain A: Y.70, F.80, N.136, T.172, Y.186, H.188, Y.297, F.301, Y.316, N.364, P.382, G.383, D.384, G.385, M.421, L.422 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.70, A:Y.186, A:F.301, A:Y.316 Hydrogen bonds: A:N.136, A:T.172, A:T.172, A:Y.186, A:G.203, A:Y.316, A:D.384, A:D.384, A:G.385, A:L.422

2 x NI: NICKEL (II) ION(Non-covalent)

NI.2: 4 residues within 4Å: Chain A: A.1, M.2, D.4, H.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:A.1, A:D.4, A:D.4, A:H.5 NI.3: 1 residues within 4Å: Chain A: H.263 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.263, H2O.2, H2O.2

1 x NHM: S-(2-OXO)PENTADECYLCOA(Non-covalent)

NHM.4: 35 residues within 4Å: Chain A: D.4, H.5, K.6, F.7, W.8, N.69, Y.70, E.72, I.135, N.136, F.137, L.138, C.139, V.140, R.145, S.146, K.147, R.148, L.149, T.150, P.151, I.154, I.157, T.158, V.161, N.162, I.166, W.167, H.168, A.169, Y.171, T.172, I.175, L.177, F.392 36 PLIP interactions: 36 interactions with chain A Hydrophobic interactions: A:W.8, A:Y.70, A:I.135, A:I.135, A:I.135, A:L.138, A:L.138, A:V.140, A:I.154, A:I.154, A:I.154, A:I.157, A:T.158, A:V.161, A:A.169, A:Y.171, A:Y.171, A:F.392 Hydrogen bonds: A:D.4, A:D.4, A:K.6, A:F.7, A:W.8, A:Y.70, A:E.72, A:L.138, A:V.140, A:R.145, A:S.146, A:R.148, A:L.149, A:T.150, A:T.150 Water bridges: A:R.148 Salt bridges: A:H.5, A:R.148

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Farazi, T.A. et al., Structures of Saccharomyces cerevisiae N-myristoyltransferase with bound myristoylCoA and peptide provide insights about substrate recognition and catalysis. Biochemistry (2001)

Release Date

2001-05-02

Peptides

Peptide N-myristoyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peptide N-myristoyltransferase

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