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SMTL ID : 6b76.2
(1 other biounit)
Crystal Structure of human NAMPT in complex with NVP-LVR596
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 2.44 Å
Oligo State
homo-dimer
Ligands
2 x
CVJ
:
(1S,2S)-N-{4-[(1S)-1-(propanoylamino)ethyl]phenyl}-2-(pyridin-3-yl)cyclopropane-1-carboxamide
(Non-covalent)
CVJ.1:
18 residues within 4Å:
Chain A:
Y.188
,
H.191
,
F.193
,
R.196
,
D.219
,
Y.240
,
S.241
,
V.242
,
A.244
,
A.245
,
S.275
,
I.309
,
R.311
,
I.351
,
A.379
Chain B:
D.16
,
Y.18
Ligands:
PO4.2
17
PLIP interactions
:
15 interactions with chain A
,
2 interactions with chain B
Hydrophobic interactions:
A:Y.188
,
A:F.193
,
A:D.219
,
A:Y.240
,
A:V.242
,
A:A.244
,
A:I.309
,
A:I.351
,
A:A.379
,
B:Y.18
Hydrogen bonds:
A:S.275
Water bridges:
A:Y.188
,
A:H.191
,
A:D.219
,
A:D.219
pi-Stacking:
A:F.193
,
B:Y.18
CVJ.5:
16 residues within 4Å:
Chain A:
D.16
,
Y.18
Chain B:
Y.188
,
H.191
,
F.193
,
R.196
,
D.219
,
Y.240
,
S.241
,
V.242
,
A.244
,
A.245
,
S.275
,
R.311
,
I.351
,
A.379
13
PLIP interactions
:
11 interactions with chain B
,
2 interactions with chain A
Hydrophobic interactions:
B:Y.188
,
B:F.193
,
B:F.193
,
B:Y.240
,
B:V.242
,
B:V.242
,
B:A.244
,
B:I.351
,
B:A.379
,
A:Y.18
Hydrogen bonds:
B:S.275
pi-Stacking:
B:F.193
,
A:Y.18
5 x
PO4
:
PHOSPHATE ION
(Non-functional Binders)
PO4.2:
7 residues within 4Å:
Chain A:
E.246
,
H.247
,
V.277
,
R.311
,
D.313
Chain B:
Y.18
Ligands:
CVJ.1
13
PLIP interactions
:
8 interactions with chain A
,
5 interactions with chain B
Hydrogen bonds:
A:H.247
,
B:Y.18
,
B:Y.18
Water bridges:
A:R.196
,
A:R.196
,
A:R.196
,
A:S.248
,
B:E.149
,
B:K.400
,
B:K.400
Salt bridges:
A:R.196
,
A:H.247
,
A:R.311
PO4.3:
5 residues within 4Å:
Chain A:
G.353
,
G.355
,
G.383
,
G.384
Chain B:
R.392
10
PLIP interactions
:
9 interactions with chain A
,
1 interactions with chain B
Hydrogen bonds:
A:G.355
,
A:G.383
,
A:G.384
,
B:R.392
Water bridges:
A:G.353
,
A:D.354
,
A:D.354
,
A:V.356
,
A:V.356
,
A:G.385
PO4.4:
4 residues within 4Å:
Chain A:
R.40
,
R.392
,
S.398
Chain B:
D.313
5
PLIP interactions
:
5 interactions with chain A
Hydrogen bonds:
A:R.40
Water bridges:
A:R.392
,
A:R.392
Salt bridges:
A:R.392
,
A:K.400
PO4.6:
5 residues within 4Å:
Chain B:
R.40
,
R.392
,
S.398
,
K.400
,
K.423
11
PLIP interactions
:
11 interactions with chain B
Hydrogen bonds:
B:S.398
Water bridges:
B:K.400
,
B:K.400
,
B:K.400
,
B:K.415
,
B:K.415
,
B:K.423
Salt bridges:
B:R.40
,
B:R.392
,
B:K.400
,
B:K.423
PO4.7:
5 residues within 4Å:
Chain A:
R.392
Chain B:
G.353
,
G.383
,
G.384
,
G.385
7
PLIP interactions
:
1 interactions with chain A
,
6 interactions with chain B
Hydrogen bonds:
A:R.392
,
B:G.353
,
B:G.383
,
B:G.384
,
B:G.385
Water bridges:
B:V.356
,
B:V.356
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Palacios, D. et al., Identification and structure based design of cellularly active cyclo-propyl carboxamide Nicotinamide phosphoribosyltransferase (NAMPT) inhibitors. To Be Published
Release Date
2018-10-03
Peptides
Nicotinamide phosphoribosyltransferase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
C
B
D
Export Alignment
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Secondary Structure
None
DSSP
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Fade Mismatches
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Chain
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2° Structure
Bfactor
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Nicotinamide phosphoribosyltransferase
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|
4kfo.1
|
4kfp.1
|
4l4l.1
|
4l4m.1
|
4lts.1
|
4lv9.1
|
4lva.1
|
4lvb.1
|
4lvd.1
|
4lvf.1
|
4lvg.1
|
4lww.1
|
4m6p.1
|
4m6q.1
|
4n9b.1
|
4n9c.1
|
4n9d.1
|
4n9e.1
|
4o0z.1
|
4o10.1
|
4o12.1
|
4o13.1
|
4wq6.1
|
6atb.1
|
6atb.2
|
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|
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more...
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6b76.1
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog
Background
Transparent
Resolution
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High
Extreme