SMTL ID : 4o1a.1

The crystal structure of the mutant NAMPT G217R

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.87 Å

Oligo State

homo-dimer

Ligands

4 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.12 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:S.398, A:S.398, A:S.398 Water bridges: A:R.40, A:R.392, A:R.392, A:R.392, A:R.392, A:F.399, A:K.400, A:K.400, A:K.415 Salt bridges: A:R.40, A:R.392, A:K.400, A:K.415 PO4.2: 6 residues within 4Å: Chain A: R.196, E.246, H.247, R.311, D.313 Chain B: Y.18 15 PLIP interactions: 10 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:H.247, A:D.313, B:Y.18 Water bridges: A:R.196, A:R.196, A:R.196, A:H.247, A:S.248, B:E.149, B:K.400, B:K.400, B:K.400 Salt bridges: A:R.196, A:H.247, A:R.311 PO4.7: 5 residues within 4Å: Chain B: R.40, R.392, S.398, K.400 Ligands: EDO.5 17 PLIP interactions: 1 interactions with chain A, 16 interactions with chain B Water bridges: A:R.196, B:R.40, B:R.40, B:R.392, B:D.393, B:F.399, B:K.400, B:K.415, B:K.415, B:K.423, B:K.423 Hydrogen bonds: B:S.398, B:S.398 Salt bridges: B:R.40, B:R.392, B:K.400, B:K.415 PO4.8: 6 residues within 4Å: Chain A: Y.18 Chain B: R.196, E.246, H.247, R.311, D.313 16 PLIP interactions: 13 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:H.247 Water bridges: B:R.196, B:R.196, B:R.196, B:R.196, B:S.248, B:R.311, B:R.311, B:R.311, B:D.313, A:K.400, A:K.400 Salt bridges: B:R.196, B:H.247, B:R.311, A:K.400

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

EDO.3: 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: 3 interactions with chain A, 4 interactions with chain B Water bridges: A:E.246, A:E.246, A:S.248, B:N.146, B:C.401, B:V.413 Hydrogen bonds: B:C.401 EDO.4: 7 residues within 4Å: Chain A: H.191, R.217, V.242, A.244, S.275, I.309, I.351 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.217, A:S.275 Water bridges: A:D.219 EDO.5: 6 residues within 4Å: Chain A: R.311, D.313, G.353, D.354 Chain B: K.423 Ligands: PO4.7 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.353, A:D.354, A:G.355, B:K.423, B:K.423 Water bridges: A:G.383 EDO.6: 4 residues within 4Å: Chain A: F.123, V.124, R.434, N.479 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.124, A:R.434, A:N.479 Water bridges: A:R.434 EDO.9: 8 residues within 4Å: Chain A: K.400, C.401, F.414, K.415, S.425 Chain B: H.247, S.248, T.251 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:T.251, A:C.401 Water bridges: B:E.246, B:S.248, A:N.146, A:F.399, A:C.401, A:V.413 EDO.10: 7 residues within 4Å: Chain B: H.191, R.217, V.242, A.244, S.275, I.309, I.351 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.217, B:S.275 Water bridges: B:D.219 EDO.11: 3 residues within 4Å: Chain B: F.123, Y.471, N.479 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.479 EDO.12: 5 residues within 4Å: Chain B: R.311, D.313, G.353, D.354 Ligands: PO4.1 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:D.354 Water bridges: B:R.311, B:G.383, A:R.392, A:R.392, A:K.423

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

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