SMTL ID : 6ow7.2 (1 other biounit)

X-ray Structure of Polypeptide Deformylase with a Piperazic Acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 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: N9Y.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.129, A:H.172, A:H.176

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 2 residues within 4Å: Chain A: S.117, R.145 3 PLIP interactions: 3 interactions with chain A Water bridges: A:V.118, A:V.118 Salt bridges: A:R.145

1 x N9Y: (3S)-2-{(2R)-2-(cyclopentylmethyl)-3-[formyl(hydroxy)amino]propanoyl}-N-(pyridin-2-yl)hexahydropyridazine-3-carboxamide(Non-covalent)

N9Y.3: 19 residues within 4Å: Chain A: R.67, G.68, G.69, V.70, G.71, L.72, 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 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.70, A:L.123, A:H.172 Hydrogen bonds: A:G.68, A:V.70, A:Q.76, A:G.128, A:L.130

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
Q

Peptide deformylase

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