SMTL ID : 4n9b.1

Fragment-based Design of 3-Aminopyridine-derived Amides as Potent Inhibitors of Human Nicotinamide Phosphoribosyltransferase (NAMPT)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.86 Å

Oligo State

homo-dimer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 5 residues within 4Å: Chain A: R.40, R.392, S.398, K.400, K.415 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.398, A:S.398 Salt bridges: A:R.40, A:R.392, A:K.400, A:K.415, A:K.423 PO4.3: 5 residues within 4Å: Chain A: R.196 Chain B: R.40, R.392, S.398, K.400 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.398, A:R.196 Water bridges: B:K.423, A:D.313 Salt bridges: B:R.40, B:R.392, B:K.400

2 x 2HH: 1-methyl-N-(pyridin-3-yl)-1H-pyrazole-5-carboxamide(Non-covalent)

2HH.2: 11 residues within 4Å: Chain A: F.193, R.196, D.219, S.241, V.242, A.244, S.275, R.311, I.351 Chain B: D.16, Y.18 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.193, A:A.244, B:Y.18, B:Y.18 Hydrogen bonds: A:D.219 Water bridges: A:R.311 pi-Stacking: A:F.193 pi-Cation interactions: A:H.191 2HH.4: 10 residues within 4Å: Chain A: Y.18 Chain B: F.193, R.196, D.219, S.241, V.242, A.244, S.275, R.311, I.351 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.193, B:A.244, A:Y.18, A:Y.18 Hydrogen bonds: B:D.219 pi-Stacking: B:H.191, B:F.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dragovich, P.S. et al., Fragment-based design of 3-aminopyridine-derived amides as potent inhibitors of human nicotinamide phosphoribosyltransferase (NAMPT). Bioorg.Med.Chem.Lett. (2014)

Release Date

2014-02-19

Peptides

Nicotinamide phosphoribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nicotinamide phosphoribosyltransferase

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