SMTL ID : 5u2n.1

Crystal structure of human NAMPT with A-1326133

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 7 residues within 4Å: Chain A: R.188, E.238, H.239, R.303, D.305 Chain B: Y.10 Ligands: 7TA.4 10 PLIP interactions: 7 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:H.239, B:Y.10 Water bridges: A:R.188, A:R.188, A:S.240, B:K.392, B:K.392 Salt bridges: A:R.188, A:H.239, A:R.303 SO4.2: 6 residues within 4Å: Chain A: R.32, R.384, C.389, S.390, K.392, K.407 13 PLIP interactions: 12 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.390, A:S.390 Water bridges: A:R.32, A:R.384, A:K.392, A:K.392, A:K.407, A:K.415, B:R.188 Salt bridges: A:R.32, A:R.384, A:K.392, A:K.407 SO4.3: 4 residues within 4Å: Chain A: R.384 Chain B: G.189, G.375, G.376 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Water bridges: A:R.384, A:R.384, A:R.384, A:D.385, B:G.189, B:G.377 Salt bridges: A:R.384 Hydrogen bonds: B:G.376 SO4.5: 5 residues within 4Å: Chain B: R.32, R.384, C.389, S.390, K.392 12 PLIP interactions: 11 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.390 Water bridges: B:R.32, B:D.385, B:K.392, B:K.407, B:K.407, B:K.415, A:R.188 Salt bridges: B:R.32, B:R.384, B:K.392, B:K.407 SO4.6: 5 residues within 4Å: Chain A: G.189, G.375, G.376 Chain B: R.384, D.385 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:G.376 Water bridges: A:G.189, A:G.375, A:G.377, B:R.384, B:R.384 Salt bridges: B:R.384 SO4.7: 7 residues within 4Å: Chain A: Y.10 Chain B: R.188, E.238, H.239, R.303, D.305 Ligands: 7TA.8 14 PLIP interactions: 9 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:H.239, B:D.305, A:Y.10 Water bridges: B:R.188, B:R.188, B:R.188, B:S.240, A:Y.10, A:K.392, A:K.392, A:K.392 Salt bridges: B:R.188, B:H.239, B:R.303

2 x 7TA: N-{4-[1-(2-methylpropanoyl)piperidin-4-yl]phenyl}-2H-pyrrolo[3,4-c]pyridine-2-carboxamide(Non-covalent)

7TA.4: 18 residues within 4Å: Chain A: Y.180, H.183, F.185, R.188, D.211, S.233, V.234, A.236, S.267, P.299, I.301, R.303, R.341, I.343, A.371 Chain B: D.8, Y.10 Ligands: SO4.1 16 PLIP interactions: 2 interactions with chain B, 14 interactions with chain A pi-Stacking: B:Y.10, B:Y.10, A:F.185, A:F.185 Hydrophobic interactions: A:D.211, A:V.234, A:P.299, A:I.301, A:I.301, A:I.343, A:A.371 Hydrogen bonds: A:K.181, A:S.267 Water bridges: A:D.211, A:D.211, A:R.303 7TA.8: 19 residues within 4Å: Chain A: D.8, Y.10 Chain B: Y.180, K.181, H.183, F.185, R.188, D.211, S.233, V.234, A.236, S.267, P.299, I.301, R.303, R.341, I.343, A.371 Ligands: SO4.7 16 PLIP interactions: 14 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:D.211, B:V.234, B:P.299, B:I.301, B:I.301, B:R.341, B:I.343, B:A.371 Hydrogen bonds: B:K.181, B:S.267 Water bridges: B:D.211, B:S.233 pi-Stacking: B:F.185, B:F.185, A:Y.10, A:Y.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wilsbacher, J.L. et al., Discovery and Characterization of Novel Nonsubstrate and Substrate NAMPT Inhibitors. Mol. Cancer Ther. (2017)

Release Date

2017-06-28

Peptides

Nicotinamide phosphoribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nicotinamide phosphoribosyltransferase

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