SMTL ID : 6ow2.1

X-ray Structure of Polypeptide Deformylase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

NI.1: 5 residues within 4Å: Chain A: Q.76, C.129, H.172, H.176 Ligands: NB4.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.129, A:H.172, A:H.176

1 x NB4: (2R)-2-(cyclopentylmethyl)-N'-{5-fluoro-6-[(9aS)-hexahydropyrazino[2,1-c][1,4]oxazin-8(1H)-yl]-2-methylpyrimidin-4-yl}-3-[hydroxy(hydroxymethyl)amino]propanehydrazide(Non-covalent)

NB4.2: 18 residues within 4Å: Chain A: Q.56, G.68, G.69, V.70, G.71, Q.76, P.89, L.123, E.127, G.128, C.129, L.130, I.168, V.169, H.172, E.173, H.176 Ligands: NI.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.70, A:E.127, A:V.169, A:H.172 Hydrogen bonds: A:G.68, A:V.70, A:G.71, A:Q.76, A:L.130 Water bridges: A:G.128 Salt bridges: A:E.173

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Spletstoser, J.T. et al., Discovery of piperazic acid peptide deformylase inhibitors with in vivo activity for respiratory tract and skin infections. Bioorg.Med.Chem.Lett. (2019)

Release Date

2019-06-26

Peptides

Peptide deformylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
P

Peptide deformylase

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