SMTL ID : 4o19.1

The crystal structure of a mutant NAMPT (G217V)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

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

PO4.1: 6 residues within 4Å: Chain A: R.40, R.392, S.398, K.400, K.415 Ligands: EDO.6 12 PLIP interactions: 1 interactions with chain B, 11 interactions with chain A Water bridges: B:R.196, A:R.392, A:D.393, A:K.400, A:K.415 Hydrogen bonds: A:S.398, A:S.398, A:S.398 Salt bridges: A:R.40, A:R.392, A:K.400, A:K.415 PO4.5: 5 residues within 4Å: Chain B: R.40, R.392, S.398, K.400, K.415 16 PLIP interactions: 14 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.398, B:S.398 Water bridges: B:R.40, B:R.392, B:D.393, B:K.400, B:K.400, B:K.400, B:K.415, B:K.423, A:D.313, A:D.354 Salt bridges: B:R.40, B:R.392, B:K.400, B:K.415

11 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 4 residues within 4Å: Chain A: H.191, V.242, S.275, I.351 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.275, A:S.275 EDO.3: 5 residues within 4Å: Chain A: F.123, V.124, R.434, F.440, N.479 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.124, A:R.434 Water bridges: A:R.434 EDO.4: 5 residues within 4Å: Chain A: R.196, E.246, H.247, R.311 Chain B: Y.18 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:H.247, A:H.247, A:R.311, A:R.311, B:Y.18 Water bridges: A:R.196, A:R.196, A:R.196, A:S.248, B:F.399, B:K.400 EDO.6: 6 residues within 4Å: Chain A: R.392 Chain B: D.313, G.353, D.354 Ligands: PO4.1, EDO.8 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.313, A:R.392 Water bridges: B:R.311 EDO.7: 4 residues within 4Å: Chain B: H.191, V.242, S.275, I.351 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.191 Water bridges: B:V.242, B:S.275, B:S.275 EDO.8: 3 residues within 4Å: Chain B: G.383, G.384 Ligands: EDO.6 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.392, B:G.383, B:G.384 Water bridges: B:G.353 EDO.9: 8 residues within 4Å: Chain B: G.185, Y.188, K.189, R.349, E.376, N.377, I.378, A.379 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.188, B:K.189, B:E.376 Water bridges: B:V.350 EDO.10: 4 residues within 4Å: Chain A: Y.18 Chain B: E.246, H.247, R.311 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:H.247, B:R.311, B:R.311 Water bridges: B:R.196, B:R.196, B:R.196, A:F.399, A:K.400 EDO.11: 8 residues within 4Å: Chain A: H.247, S.248, T.251 Chain B: K.400, C.401, F.414, K.415, S.425 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:C.401 Water bridges: B:F.399, B:C.401, B:V.413, A:E.246, A:E.246, A:S.248 EDO.12: 7 residues within 4Å: Chain A: F.193, G.194, R.196, G.197, G.383, G.384 Chain B: R.392 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:F.193, A:G.197, A:G.384, B:R.392, B:R.392 Water bridges: A:R.196, B:R.392 EDO.13: 6 residues within 4Å: Chain B: S.31, K.32, N.136, T.137, D.138, P.139 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.32, B:N.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, W. et al., Structural Basis for Resistance to Diverse Classes of NAMPT Inhibitors. Plos One (2014)

Release Date

2014-10-22

Peptides

Nicotinamide phosphoribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nicotinamide phosphoribosyltransferase