SMTL ID : 4m6q.1

Identification of Amides Derived From 1H-Pyrazolo[3,4-b]pyridine-5-carboxylic Acid as Potent Inhibitors of Human Nicotinamide Phosphoribosyltransferase (NAMPT)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.41 Å

Oligo State

homo-dimer

Ligands

2 x 20T: 1-(5-O-phosphono-beta-D-ribofuranosyl)-N-(4-{[3-(trifluoromethyl)phenyl]sulfonyl}benzyl)-1H-pyrazolo[3,4-b]pyridine-5-carboxamide(Non-covalent)

20T.1: 25 residues within 4Å: Chain A: Y.188, H.191, F.193, R.196, G.217, D.219, Y.240, S.241, V.242, A.244, S.275, I.309, R.311, D.313, I.351, G.353, D.354, A.379, G.383, G.384 Chain B: D.16, Y.18, R.392 Ligands: PO4.3, POP.5 23 PLIP interactions: 19 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:F.193, A:V.242, A:V.242, A:A.244, A:I.309, A:I.351 Hydrogen bonds: A:D.219, A:R.311, A:G.353, A:G.383, A:G.384, B:R.392 Water bridges: A:R.196, A:D.354, A:D.354, A:D.354, A:V.356, B:R.392 pi-Stacking: A:H.191, A:F.193, A:F.193, B:Y.18 Salt bridges: B:R.392 20T.4: 24 residues within 4Å: Chain A: D.16, Y.18, R.392 Chain B: Y.188, H.191, F.193, R.196, G.217, D.219, Y.240, S.241, V.242, A.244, S.275, I.309, R.311, D.313, I.351, G.353, A.379, G.383, G.384 Ligands: POP.2, PO4.6 20 PLIP interactions: 16 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:V.242, B:V.242, B:A.244, B:I.309 Hydrogen bonds: B:R.196, B:D.219, B:R.311, B:D.313, B:G.383, B:G.384, B:G.385 Water bridges: B:A.245, B:V.356, A:R.392, A:R.392 pi-Stacking: B:H.191, B:F.193, B:F.193, A:Y.18 Salt bridges: A:R.392

2 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.2: 8 residues within 4Å: Chain A: R.40, R.392, S.398, K.400, K.415 Chain B: R.196 Ligands: 20T.4, PO4.6 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Water bridges: A:F.399, A:K.423, A:K.423, B:R.196 Salt bridges: A:R.40, A:R.392, A:R.392, A:K.400, A:K.400, A:K.415, A:K.423, B:R.196 POP.5: 10 residues within 4Å: Chain A: R.196, D.354 Chain B: R.40, R.392, S.398, K.400, K.415, K.423 Ligands: 20T.1, PO4.3 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Water bridges: B:K.415, B:K.415, B:K.423, B:K.423, A:H.247 Salt bridges: B:R.40, B:R.392, B:R.392, B:K.400, B:K.400, B:K.415, B:K.423, A:R.196

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

PO4.3: 8 residues within 4Å: Chain A: R.196, A.245, E.246, H.247, R.311 Chain B: Y.18 Ligands: 20T.1, POP.5 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:E.246, A:H.247, B:Y.18, B:Y.18 Water bridges: A:R.196, A:S.248, A:R.311 Salt bridges: A:R.196, A:H.247, A:R.311 PO4.6: 8 residues within 4Å: Chain A: Y.18 Chain B: R.196, E.246, H.247, R.311, D.313 Ligands: POP.2, 20T.4 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:H.247 Salt bridges: B:R.196, B:H.247, B:R.311 Water bridges: A:Y.18, A:Y.18

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zheng, X. et al., Identification of amides derived from 1H-pyrazolo[3,4-b]pyridine-5-carboxylic acid as potent inhibitors of human nicotinamide phosphoribosyltransferase (NAMPT). Bioorg.Med.Chem.Lett. (2013)

Release Date

2013-09-25

Peptides

Nicotinamide phosphoribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nicotinamide phosphoribosyltransferase

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