Target Binding Site Detail
| Target General Information | Top | ||||
|---|---|---|---|---|---|
| Target ID | T43739 | Target Info | |||
| Target Name | Voltage-gated sodium channel alpha Nav1.8 (SCN10A) | ||||
| Synonyms | hPN3; Voltage-gated sodium channel subunit alpha Nav1.8; Sodium channel protein type X subunit alpha; Sodium channel protein type 10 subunit alpha; Peripheral nerve sodium channel 3; PN3 | ||||
| Target Type | Successful Target | ||||
| Gene Name | SCN10A | ||||
| Biochemical Class | Voltage-gated ion channel | ||||
| UniProt ID | |||||
| Ligand General Information | Top | ||||
|---|---|---|---|---|---|
| Ligand Name | Cholesterol | Ligand Info | |||
| Canonical SMILES | CC(C)CCCC(C)C1CCC2C1(CCC3C2CC=C4C3(CCC(C4)O)C)C | ||||
| InChI | 1S/C27H46O/c1-18(2)7-6-8-19(3)23-11-12-24-22-10-9-20-17-21(28)13-15-26(20,4)25(22)14-16-27(23,24)5/h9,18-19,21-25,28H,6-8,10-17H2,1-5H3/t19-,21+,22+,23-,24+,25+,26+,27-/m1/s1 | ||||
| InChIKey | HVYWMOMLDIMFJA-DPAQBDIFSA-N | ||||
| PubChem Compound ID | 5997 | ||||
| Drug Binding Sites of Target | Top | |||||
|---|---|---|---|---|---|---|
| PDB ID: 7WE4 Human Nav1.8 with A-803467, class I | ||||||
| Method | Electron microscopy | Resolution | 2.70 Å | Mutation | No | [1] |
| PDB Sequence |
LIRRTAIKVS
127 VHSWFSLFIT137 VTILVNCVCM147 TRTDLPEKIE157 YVFTVIYTFE167 ALIKILARGF 177 CLNEFTYLRD187 PWNWLDFSVI197 TLAYVGTAID207 LRGISGLRTF217 RVLRALKTVS 227 VIPGLKVIVG237 ALIHSVKKLA247 DVTILTIFCL257 SVFALVGLQL267 FKGNLKNKCV 277 KNDMAYSSHR293 KPDIYINKRG303 TSDPLLCGNG313 SDSGHCPDGY323 ICLKTSDNPD 333 FNYTSFDSFA343 WAFLSLFRLM353 TQDSWERLYQ363 QTLRTSGKIY373 MIFFVLVIFL 383 GSFYLVNLIL393 AVVTMAYEEQ403 NQATWVKLKT656 ILFGLVTDPF666 AELTITLCIV 676 VNTIFMAMEH686 HGMSPTFEAM696 LQIGNIVFTI706 FFTAEMVFKI716 IAFDPYYYFQ 726 KKWNIFDCII736 VTVSLLELGV746 AKKGSLSVLR756 SFRLLRVFKL766 AKSWPTLNTL 776 IKIIGNSVGA786 LGNLTIILAI796 IVFVFALVGK806 QLLGENYRNN816 RKNISAPHED 826 WPRWHMHDFF836 HSFLIVFRIL846 CGEWIENMWA856 CMEVGQKSIC866 LILFLTVMVL 876 GNLVVLNLFI886 ALLLNSFFAD1136 VGWQVRKTCY1146 RIVEHSWFES1156 FIIFMILLSS 1166 GSLAFEDYYL1176 DQKPTVKALL1186 EYTDRVFTFI1196 FVFEMLLKWV1206 AYGFKKYFTN 1216 AWCWLDFLIV1226 NISLISLTAK1236 ILEYSEVAPI1246 KALRTLRALR1256 PLRALSRFEG 1266 MRVVVDALVG1276 AIPSIMNVLL1286 VCLIFWLIFS1296 IMGVNLFAGK1306 FWRCINYTDG 1316 EFSLVPLSIV1326 NNKSDCKIQN1336 STGSFFWVNV1346 KVNFDNVAMG1356 YLALLQVATF 1366 KGWMDIMYAA1376 VDSREVNMQP1386 KWEDNVYMYL1396 YFVIFIIFGG1406 FFTLNLFVGV 1416 IIDNFNQQKK1426 KLGGQDIFMT1436 EEQKKYYNAM1446 KKLGSKKPQK1456 PIPRPLNKFQ 1466 GFVFDIVTRQ1476 AFDITIMVLI1486 CLNMITMMVE1496 TDDQSEEKTK1506 ILGKINQFFV 1516 AVFTGECVMK1526 MFALRQYYFT1536 NGWNVFDFIV1546 VVLSIASLIF1556 SAILKSLQSY 1566 FSPTLFRVIR1576 LARIGRILRL1586 IRAAKGIRTL1596 LFALMMSLPA1606 LFNIGLLLFL 1616 VMFIYSIFGM1626 SSFPHVRWEA1636 GIDDMFNFQT1646 FANSMLCLFQ1656 ITTSAGWDGL 1666 LSPILNTGPP1676 YCDPNLPNSN1686 GTRGDCGSPA1696 VGIIFFTTYI1706 IISFLIMVNM 1716 YIAVILENFN1726 VA
|
|||||
|
|
SER341
3.722
PHE342
3.978
ALA343
4.152
ASN390
4.613
LEU393
3.340
THR397
3.590
GLU401
3.224
VAL676
4.483
THR679
3.671
ILE680
4.320
VAL763
4.569
LEU766
3.435
SER769
3.583
TRP770
3.436
PRO771
4.165
PHE885
4.150
ILE886
3.760
LEU889
3.713
LEU890
4.837
PHE1214
4.086
THR1215
3.645
ALA1217
3.650
TRP1220
3.541
LEU1224
4.496
LEU1286
4.586
ILE1290
3.419
LEU1293
4.284
VAL1414
3.489
ILE1418
3.182
ASN1422
4.675
ILE1491
4.213
MET1494
3.696
VAL1495
3.479
THR1497
4.099
LYS1504
4.111
PHE1710
4.066
MET1713
2.666
VAL1714
3.266
TYR1717
3.069
ILE1718
3.596
ILE1721
2.629
LEU1722
4.900
PHE1725
3.736
|
|||||
| PDB ID: 7WFR Human Nav1.8 with A-803467, class III | ||||||
| Method | Electron microscopy | Resolution | 3.00 Å | Mutation | No | [1] |
| PDB Sequence |
SWFSLFITVT
139 ILVNCVCMTR149 TDLPEKIEYV159 FTVIYTFEAL169 IKILARGDPW189 NWLDFSVITL 199 AYVGTAIDLR209 GISGLRTFRV219 LRALKTVSVI229 PGLKVIVGAL239 IHSVKKLADV 249 TILTIFCLSV259 FALVGLQLFK269 GNLKNKCVKN279 DMAYSSHRKP295 DIYINKRGTS 305 DPLLCGNGSD315 SGHCPDGYIC325 LKTSDNPDFN335 YTSFDSFAWA345 FLSLFRLMTQ 355 DSWERLYQQT365 LRTSGKIYMI375 FFVLVIFLGS385 FYLVNLILAV395 VTMAYEEQNQ 405 ATWVKLKTIL658 FGLVTDPFAE668 LTITLCIVVN678 TIFMAMEHHG688 MSPTFEAMLQ 698 IGNIVFTIFF708 TAEMVFKIIA718 FDPYYYFQKK728 WNIFDCIIVT738 VSLLELGVAK 748 KGSLSVLRSF758 RLLRVFKLAK768 SWPTLNTLIK778 IIGNSVGALG788 NLTIILAIIV 798 FVFALVGKQL808 LGENYRNNRK818 NISAPHEDWP828 RWHMHDFFHS838 FLIVFRILCG 848 EWIENMWACM858 EVGQKSICLI868 LFLTVMVLGN878 LVVLNLFIAL888 LLNSFFADVG 1138 WQVRKTCYRI1148 VEHSWFESFI1158 IFMILLSSGS1168 LAFEDYYLDQ1178 KPTVKALLEY 1188 TDRVFTFIFV1198 FEMLLKWVAY1208 GFKKYFTNAW1218 CWLDFLIVNI1228 SLISLTAKIL 1238 EYSEVAPIKA1248 LRTLRALRPL1258 RALSRFEGMR1268 VVVDALVGAI1278 PSIMNVLLVC 1288 LIFWLIFSIM1298 GVNLFAGKFW1308 RCINYTDGEF1318 SLVPLSIVNN1328 KSDCKIQNST 1338 GSFFWVNVKV1348 NFDNVAMGYL1358 ALLQVATFKG1368 WMDIMYAAVD1378 SREVNMQPKW 1388 EDNVYMYLYF1398 VIFIIFGGFF1408 TLNLFVGVII1418 DNFNQQKKKL1428 GGQDIFMTEE 1438 QKKYYNAMKK1448 LGSKKPQKPI1458 PRPLNKFQGF1468 VFDIVTRQAF1478 DITIMVLICL 1488 NMITMMVETD1498 DQSEEKTKIL1508 GKINQFFVAV1518 FTGECVMKMF1528 ALRQYYFTNG 1538 WNVFDFIVVV1548 LSIASLIFSA1558 ILKSLQSYFS1568 PTLFRVIRLA1578 RIGRILRLIR 1588 AAKGIRTLLF1598 ALMMSLPALF1608 NIGLLLFLVM1618 FIYSIFGMSS1628 FPHVRWEAGI 1638 DDMFNFQTFA1648 NSMLCLFQIT1658 TSAGWDGLLS1668 PILNTGPPYC1678 DPNLPNSNGT 1688 RGDCGSPAVG1698 IIFFTTYIII1708 SFLIMVNMYI1718 AVILENFNVA1728 |
|||||
|
|
SER341
3.683
PHE342
4.182
ALA343
4.087
ASN390
4.927
LEU393
3.053
THR397
4.287
VAL676
4.186
THR679
2.718
ILE680
4.334
LYS728
3.369
ILE731
4.409
PHE732
4.506
ILE735
3.266
VAL754
4.766
PHE758
3.496
LEU761
3.262
LEU766
4.101
SER769
3.185
TRP770
3.753
PRO771
4.230
PHE885
3.451
ILE886
4.148
LEU889
3.263
PHE894
4.409
PHE1214
4.023
THR1215
3.770
ASN1216
4.379
ALA1217
3.906
TRP1220
3.498
LEU1224
4.633
LEU1286
3.833
ILE1290
3.303
LEU1293
4.951
LEU1410
4.984
VAL1414
3.679
ILE1418
2.814
ASN1422
4.037
ILE1491
4.233
MET1494
3.784
VAL1495
3.624
THR1497
3.456
LYS1504
4.855
PHE1710
3.822
VAL1714
4.128
TYR1717
3.425
ILE1718
3.597
ILE1721
2.743
LEU1722
4.780
PHE1725
4.042
|
|||||
| PDB ID: 7WFW Apo human Nav1.8 | ||||||
| Method | Electron microscopy | Resolution | 3.10 Å | Mutation | No | [1] |
| PDB Sequence |
LKVIVGALIH
241 SVKKLADVTI251 LTIFCLSVFA261 LVGLQLFKGN271 LKNKCVKNDP295 DIYINKRGTS 305 DPLLCGNGSD315 SGHCPDGYIC325 LKTSDNPDFN335 YTSFDSFAWA345 FLSLFRLMTQ 355 DSWERLYQQT365 LRTSGKIYMI375 FFVLVIFLGS385 FYLVNLILAV395 VTMAYEEQNQ 405 ATWVKLKTIL658 FGLVTDPFAE668 LTITLCIVVN678 TIFMAMEHHG688 MSPTFEAMLQ 698 IGNIVFTIFF708 TAEMVFKIIA718 FDPYYYFQKK728 WNIFDCIIVT738 VSLLELGVAK 748 KGSLSVLRSF758 RLLRVFKLAK768 SWPTLNTLIK778 IIGNSVGALG788 NLTIILAIIV 798 FVFALVGKQL808 LGENYRNNRK818 NISAPHEDWP828 RWHMHDFFHS838 FLIVFRILCG 848 EWIENMWACM858 EVGQKSICLI868 LFLTVMVLGN878 LVVLNLFIAL888 LLNSFFADVG 1138 WQVRKTCYRI1148 VEHSWFESFI1158 IFMILLSSGS1168 LAFEDYYLDQ1178 KPTVKALLEY 1188 TDRVFTFIFV1198 FEMLLKWVAY1208 GFKKYFTNAW1218 CWLDFLIVNI1228 SLISLTAKIL 1238 EYSEVAPIKA1248 LRTLRALRPL1258 RALSRFEGMR1268 VVVDALVGAI1278 PSIMNVLLVC 1288 LIFWLIFSIM1298 GVNLFAGKFW1308 RCINYTDGEF1318 SLVPLSIVNN1328 KSDCKIQNST 1338 GSFFWVNVKV1348 NFDNVAMGYL1358 ALLQVATFKG1368 WMDIMYAAVD1378 SREVNMQPKW 1388 EDNVYMYLYF1398 VIFIIFGGFF1408 TLNLFVGVII1418 DNFNQQKKKL1428 GGQDIFMTEE 1438 QKKYYNAMKK1448 LGSKKPQKPI1458 PRPLNKFQGF1468 VFDIVTRQAF1478 DITIMVLICL 1488 NMITMMVETD1498 DQSEEKTKIL1508 GKINQFFVAV1518 FTGECVMKMF1528 ALRQYYFTNG 1538 WNVFDFIVVV1548 LSIASLIFSA1558 ILKSLQSYFS1568 PTLFRVIRLA1578 RIGRILRLIR 1588 AAKGIRTLLF1598 ALMMSLPALF1608 NIGLLLFLVM1618 FIYSIFGMSS1628 FPHVRWEAGI 1638 DDMFNFQTFA1648 NSMLCLFQIT1658 TSAGWDGLLS1668 PILNTGPPYC1678 DPNLPNSNGT 1688 RGDCGSPAVG1698 IIFFTTYIII1708 SFLIMVNMYI1718 AVILENFN
|
|||||
|
|
SER341
3.923
PHE342
4.237
ALA343
3.814
VAL676
4.100
THR679
3.341
ILE680
4.584
LYS728
2.709
ILE731
3.798
PHE732
3.567
ILE735
4.056
PHE758
3.398
LEU761
2.815
VAL763
4.974
LEU766
4.735
SER769
2.929
|
|||||
| PDB ID: 7WEL Human Nav1.8 with A-803467, class II | ||||||
| Method | Electron microscopy | Resolution | 3.20 Å | Mutation | No | [1] |
| PDB Sequence |
HSWFSLFITV
138 TILVNCVCMT148 RTDLPEKIEY158 VFTVIYTFEA168 LIKILARGFD187 PWNWLDFSVI 197 TLAYVGTAID207 LRGISGLRTF217 RVLRALKTVS227 VIPGLKVIVG237 ALIHSVKKLA 247 DVTILTIFCL257 SVFALVGLQL267 FKGNLKNKCV277 KNDMAYSSHR293 KPDIYINKRG 303 TSDPLLCGNG313 SDSGHCPDGY323 ICLKTSDNPD333 FNYTSFDSFA343 WAFLSLFRLM 353 TQDSWERLYQ363 QTLRTSGKIY373 MIFFVLVIFL383 GSFYLVNLIL393 AVVTMAYEEQ 403 NQATWVKLKT656 ILFGLVTDPF666 AELTITLCIV676 VNTIFMAMEH686 HGMSPTFEAM 696 LQIGNIVFTI706 FFTAEMVFKI716 IAFDPYYYFQ726 KKWNIFDCII736 VTVSLLELGV 746 AKKGSLSVLR756 SFRLLRVFKL766 AKSWPTLNTL776 IKIIGNSVGA786 LGNLTIILAI 796 IVFVFALVGK806 QLLGENYRNN816 RKNISAPHED826 WPRWHMHDFF836 HSFLIVFRIL 846 CGEWIENMWA856 CMEVGQKSIC866 LILFLTVMVL876 GNLVVLNLFI886 ALLLNSFFAD 1136 VGWQVRKTCY1146 RIVEHSWFES1156 FIIFMILLSS1166 GSLAFEDYYL1176 DQKPTVKALL 1186 EYTDRVFTFI1196 FVFEMLLKWV1206 AYGFKKYFTN1216 AWCWLDFLIV1226 NISLISLTAK 1236 ILEYSEVAPI1246 KALRTLRALR1256 PLRALSRFEG1266 MRVVVDALVG1276 AIPSIMNVLL 1286 VCLIFWLIFS1296 IMGVNLFAGK1306 FWRCINYTDG1316 EFSLVPLSIV1326 NNKSDCKIQN 1336 STGSFFWVNV1346 KVNFDNVAMG1356 YLALLQVATF1366 KGWMDIMYAA1376 VDSREVNMQP 1386 KWEDNVYMYL1396 YFVIFIIFGG1406 FFTLNLFVGV1416 IIDNFNQQKK1426 KLGGQDIFMT 1436 EEQKKYYNAM1446 KKLGSKKPQK1456 PIPRPLNKFQ1466 GFVFDIVTRQ1476 AFDITIMVLI 1486 CLNMITMMVE1496 TDDQSEEKTK1506 ILGKINQFFV1516 AVFTGECVMK1526 MFALRQYYFT 1536 NGWNVFDFIV1546 VVLSIASLIF1556 SAILKSLQSY1566 FSPTLFRVIR1576 LARIGRILRL 1586 IRAAKGIRTL1596 LFALMMSLPA1606 LFNIGLLLFL1616 VMFIYSIFGM1626 SSFPHVRWEA 1636 GIDDMFNFQT1646 FANSMLCLFQ1656 ITTSAGWDGL1666 LSPILNTGPP1676 YCDPNLPNSN 1686 GTRGDCGSPA1696 VGIIFFTTYI1706 IISFLIMVNM1716 YIAVILENFN1726 VA |
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Click to Show 3D Structure of This Binding Site
set background white;style ions nothing; color 8e8e8e;style chemicals nothing; select .CLR or .CLR2 or .CLR3 or :3CLR;style chemicals stick;color identity;select .A:341 or .A:342 or .A:343 or .A:393 or .A:397 or .A:401 or .A:676 or .A:679 or .A:680 or .A:728 or .A:731 or .A:732 or .A:735 or .A:758 or .A:761 or .A:763 or .A:766 or .A:769 or .A:770 or .A:771 or .A:885 or .A:886 or .A:889 or .A:890 or .A:1214 or .A:1215 or .A:1216 or .A:1217 or .A:1220 or .A:1224 or .A:1283 or .A:1286 or .A:1290 or .A:1293 or .A:1414 or .A:1418 or .A:1491 or .A:1494 or .A:1495 or .A:1497 or .A:1504 or .A:1710 or .A:1713 or .A:1714 or .A:1717 or .A:1721 or .A:1725; color #f3c393; zoom selection;set surface opacity 0.5;set surface Van der Waals surface;set mode all
|
SER341
4.322
PHE342
3.924
ALA343
3.849
LEU393
3.246
THR397
3.456
GLU401
3.271
VAL676
4.462
THR679
3.469
ILE680
4.794
LYS728
2.562
ILE731
4.794
PHE732
4.192
ILE735
3.076
PHE758
3.199
LEU761
3.897
VAL763
4.196
LEU766
4.799
SER769
3.503
TRP770
3.701
PRO771
4.017
PHE885
3.434
ILE886
3.426
LEU889
4.041
LEU890
3.683
PHE1214
4.266
THR1215
3.840
ASN1216
4.688
ALA1217
4.084
TRP1220
3.991
LEU1224
4.753
ASN1283
4.786
LEU1286
2.880
ILE1290
3.327
LEU1293
4.115
VAL1414
3.508
ILE1418
3.239
ILE1491
3.873
MET1494
3.103
VAL1495
3.574
THR1497
3.536
LYS1504
4.410
PHE1710
4.141
MET1713
3.561
VAL1714
3.410
TYR1717
2.983
ILE1721
3.105
PHE1725
3.830
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| References | Top | ||||
|---|---|---|---|---|---|
| REF 1 | Structural basis for high-voltage activation and subtype-specific inhibition of human Na(v)1.8. Proc Natl Acad Sci U S A. 2022 Jul 26;119(30):e2208211119. | ||||
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