Target Binding Site Detail
Target General Information | Top | ||||
---|---|---|---|---|---|
Target ID | T97621 | Target Info | |||
Target Name | cAMP-dependent chloride channel F508 deletion (CFTR del F508) | ||||
Synonyms | cAMP-dependent chloride channel (del F508); Cystic fibrosis transmembrane conductance regulator (del F508); Channel conductance-controlling ATPase; CFTR; ATP-binding cassette sub-family C member 7 (del F508); ABCC7 (del F508) | ||||
Target Type | Successful Target | ||||
Gene Name | CFTR | ||||
Biochemical Class | ABC transporter | ||||
UniProt ID |
Ligand General Information | Top | ||||
---|---|---|---|---|---|
Ligand Name | Adenosine triphosphate | Ligand Info | |||
Canonical SMILES | C1=NC(=C2C(=N1)N(C=N2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)O)N | ||||
InChI | 1S/C10H16N5O13P3/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(26-10)1-25-30(21,22)28-31(23,24)27-29(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H,23,24)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1 | ||||
InChIKey | ZKHQWZAMYRWXGA-KQYNXXCUSA-N | ||||
PubChem Compound ID | 5957 |
Drug Binding Sites of Target | Top | |||||
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PDB ID: 8EIO The complex of phosphorylated human delta F508 cystic fibrosis transmembrane conductance regulator (CFTR) with elexacaftor (VX-445), lumacaftor (VX-809) and ATP/Mg | ||||||
Method | Electron microscopy | Resolution | 2.80 Å | Mutation | Yes | [1] |
PDB Sequence |
MQRSPLEKAS
10 VVSKLFFSWT20 RPILRKGYRQ30 RLELSDIYQI40 PSVDSADNLS50 EKLEREWDRE 60 LASKKNPKLI70 NALRRCFFWR80 FMFYGIFLYL90 GEVTKAVQPL100 LLGRIIASYD 110 PDNKEERSIA120 IYLGIGLCLL130 FIVRTLLLHP140 AIFGLHHIGM150 QMRIAMFSLI 160 YKKTLKLSSR170 VLDKISIGQL180 VSLLSNNLNK190 FDEGLALAHF200 VWIAPLQVAL 210 LMGLIWELLQ220 ASAFCGLGFL230 IVLALFQAGL240 GRMMMKYRDQ250 RAGKISERLV 260 ITSEMIENIQ270 SVKAYCWEEA280 MEKMIENLRQ290 TELKLTRKAA300 YVRYFNSSAF 310 FFSGFFVVFL320 SVLPYALIKG330 IILRKIFTTI340 SFCIVLRMAV350 TRQFPWAVQT 360 WYDSLGAINK370 IQDFLQKQEY380 KTLEYNLTTT390 EVVMENVTAF400 WEGTPVLKDI 444 NFKIERGQLL454 AVAGSTGAGK464 TSLLMVIMGE474 LEPSEGKIKH484 SGRISFCSQF 494 SWIMPGTIKE504 NIIGVSYDEY515 RYRSVIKACQ525 LEEDISKFAE535 KDNIVLGEGG 545 ITLSGGQRAR555 ISLARAVYKD565 ADLYLLDSPF575 GYLDVLTEKE585 IFESCVCKLM 595 ANKTRILVTS605 KMEHLKKADK615 ILILHEGSSY625 FYGTFSELQN635 LWNTYLRYIT 854 VHKSLIFVLI864 WCLVIFLAEV874 AASLVVLWLL884 GSYAVIITST910 SSYYVFYIYV 920 GVADTLLAMG930 FFRGLPLVHT940 LITVSKILHH950 KMLHSVLQAP960 MSTLNTLKAG 970 GILNRFSKDI980 AILDDLLPLT990 IFDFIQLLLI1000 VIGAIAVVAV1010 LQPYIFVATV 1020 PVIVAFIMLR1030 AYFLQTSQQL1040 KQLESEGRSP1050 IFTHLVTSLK1060 GLWTLRAFGR 1070 QPYFETLFHK1080 ALNLHTANWF1090 LYLSTLRWFQ1100 MRIEMIFVIF1110 FIAVTFISIL 1120 TTGEGEGRVG1130 IILTLAMNIM1140 STLQWAVNSS1150 IDVDSLMRSV1160 SRVFKFIDMP 1170 TEGIWPSGGQ1209 MTVKDLTAKY1219 TEGGNAILEN1229 ISFSISPGQR1239 VGLLGRTGSG 1249 KSTLLSAFLR1259 LLNTEGEIQI1269 DGVSWDSITL1279 QQWRKAFGVI1289 PQKVFIFSGT 1299 FRKNLDPYEQ1309 WSDQEIWKVA1319 DEVGLRSVIE1329 QFPGKLDFVL1339 VDGGCVLSHG 1349 HKQLMCLARS1359 VLSKAKILLL1369 DQPSAHLDPV1379 TYQIIRRTLK1389 QAFADCTVIL 1399 CEHRIEAMLE1409 CQQFLVIEEN1419 KVRQYDSIQK1429 LLNERSLFRQ1439 AISPSDRVKL 1449 FP
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|
TRP401
3.479
VAL440
4.032
SER459
3.748
THR460
3.577
GLY461
3.066
ALA462
3.311
GLY463
3.186
LYS464
2.844
THR465
2.655
SER466
3.184
GLN493
3.281
PHE533
3.996
ILE546
3.966
THR547
3.220
LEU548
4.126
SER549
2.744
GLY550
3.889
GLY551
2.815
GLN552
2.946
TYR577
4.279
ASN965
4.475
TYR1219
3.493
ILE1226
3.842
ARG1245
3.762
THR1246
3.498
GLY1247
2.971
SER1248
3.511
GLY1249
3.289
LYS1250
2.726
SER1251
2.702
THR1252
3.085
GLN1291
3.155
GLN1330
3.665
PHE1331
4.816
CYS1344
3.531
VAL1345
3.034
LEU1346
4.070
SER1347
3.078
HIS1348
3.333
GLY1349
2.761
HIS1350
4.023
HIS1375
4.796
HIS1402
3.375
|
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PDB ID: 8EIQ The complex of phosphorylated human delta F508 cystic fibrosis transmembrane conductance regulator (CFTR) with Trikafta [elexacaftor (VX-445), tezacaftor (VX-661), ivacaftor (VX-770)] and ATP/Mg | ||||||
Method | Electron microscopy | Resolution | 3.00 Å | Mutation | Yes | [1] |
PDB Sequence |
MQRSPLEKAS
10 VVSKLFFSWT20 RPILRKGYRQ30 RLELSDIYQI40 PSVDSADNLS50 EKLEREWDRE 60 LASKKNPKLI70 NALRRCFFWR80 FMFYGIFLYL90 GEVTKAVQPL100 LLGRIIASYD 110 PDNKEERSIA120 IYLGIGLCLL130 FIVRTLLLHP140 AIFGLHHIGM150 QMRIAMFSLI 160 YKKTLKLSSR170 VLDKISIGQL180 VSLLSNNLNK190 FDEGLALAHF200 VWIAPLQVAL 210 LMGLIWELLQ220 ASAFCGLGFL230 IVLALFQAGL240 GRMMMKYRDQ250 RAGKISERLV 260 ITSEMIENIQ270 SVKAYCWEEA280 MEKMIENLRQ290 TELKLTRKAA300 YVRYFNSSAF 310 FFSGFFVVFL320 SVLPYALIKG330 IILRKIFTTI340 SFCIVLRMAV350 TRQFPWAVQT 360 WYDSLGAINK370 IQDFLQKQEY380 KTLEYNLTTT390 EVVMENVTAF400 WEGTPVLKDI 444 NFKIERGQLL454 AVAGSTGAGK464 TSLLMVIMGE474 LEPSEGKIKH484 SGRISFCSQF 494 SWIMPGTIKE504 NIIGVSYDEY515 RYRSVIKACQ525 LEEDISKFAE535 KDNIVLGEGG 545 ITLSGGQRAR555 ISLARAVYKD565 ADLYLLDSPF575 GYLDVLTEKE585 IFESCVCKLM 595 ANKTRILVTS605 KMEHLKKADK615 ILILHEGSSY625 FYGTFSELQN635 LWNTYLRYIT 854 VHKSLIFVLI864 WCLVIFLAEV874 AASLVVLWLL884 GSYAVIITST910 SSYYVFYIYV 920 GVADTLLAMG930 FFRGLPLVHT940 LITVSKILHH950 KMLHSVLQAP960 MSTLNTLKAG 970 GILNRFSKDI980 AILDDLLPLT990 IFDFIQLLLI1000 VIGAIAVVAV1010 LQPYIFVATV 1020 PVIVAFIMLR1030 AYFLQTSQQL1040 KQLESEGRSP1050 IFTHLVTSLK1060 GLWTLRAFGR 1070 QPYFETLFHK1080 ALNLHTANWF1090 LYLSTLRWFQ1100 MRIEMIFVIF1110 FIAVTFISIL 1120 TTGEGEGRVG1130 IILTLAMNIM1140 STLQWAVNSS1150 IDVDSLMRSV1160 SRVFKFIDMP 1170 TEGIWPSGGQ1209 MTVKDLTAKY1219 TEGGNAILEN1229 ISFSISPGQR1239 VGLLGRTGSG 1249 KSTLLSAFLR1259 LLNTEGEIQI1269 DGVSWDSITL1279 QQWRKAFGVI1289 PQKVFIFSGT 1299 FRKNLDPYEQ1309 WSDQEIWKVA1319 DEVGLRSVIE1329 QFPGKLDFVL1339 VDGGCVLSHG 1349 HKQLMCLARS1359 VLSKAKILLL1369 DQPSAHLDPV1379 TYQIIRRTLK1389 QAFADCTVIL 1399 CEHRIEAMLE1409 CQQFLVIEEN1419 KVRQYDSIQK1429 LLNERSLFRQ1439 AISPSDRVKL 1449 FP
|
|||||
|
TRP401
3.595
VAL440
4.392
SER459
4.445
THR460
3.725
GLY461
3.104
ALA462
3.691
GLY463
3.090
LYS464
2.523
THR465
2.655
SER466
3.184
GLN493
3.040
PHE533
3.988
ILE546
4.297
THR547
3.300
LEU548
4.120
SER549
2.429
GLY550
3.537
GLY551
2.662
GLN552
3.029
TYR577
4.350
TYR1219
3.529
ILE1226
4.241
ARG1245
4.119
THR1246
3.112
GLY1247
3.036
SER1248
3.724
GLY1249
3.252
LYS1250
2.602
SER1251
2.663
THR1252
3.045
GLN1291
3.183
GLN1330
3.711
CYS1344
3.703
VAL1345
2.907
LEU1346
4.160
SER1347
3.346
HIS1348
3.266
GLY1349
2.842
HIS1350
4.253
HIS1375
4.442
HIS1402
3.502
|
|||||
PDB ID: 8EIG The complex of phosphorylated human delta F508 cystic fibrosis transmembrane conductance regulator (CFTR) with elexacaftor (VX-445) and ATP/Mg | ||||||
Method | Electron microscopy | Resolution | 3.60 Å | Mutation | Yes | [1] |
PDB Sequence |
RSPLEKASVV
12 SKLFFSWTRP22 ILRKGYRQRL32 ELSDIYQIPS42 VDSADNLSEK52 LEREWDRELA 62 SKKNPKLINA72 LRRCFFWRFM82 FYGIFLYLGE92 VTKAVQPLLL102 GRIIASYDPD 112 NKEERSIAIY122 LGIGLCLLFI132 VRTLLLHPAI142 FGLHHIGMQM152 RIAMFSLIYK 162 KTLKLSSRVL172 DKISIGQLVS182 LLSNNLNKFD192 EGLALAHFVW202 IAPLQVALLM 212 GLIWELLQAS222 AFCGLGFLIV232 LALFQAGLGR242 MMMKYRDQRA252 GKISERLVIT 262 SEMIENIQSV272 KAYCWEEAME282 KMIENLRQTE292 LKLTRKAAYV302 RYFNSSAFFF 312 SGFFVVFLSV322 LPYALIKGII332 LRKIFTTISF342 CIVLRMAVTR352 QFPWAVQTWY 362 DSLGAINKIQ372 DFLQKQEYKT382 LEYNLTTTEV392 VMENVTAFWE402 GTPVLKDINF 446 KIERGQLLAV456 AGSTGAGKTS466 LLMVIMGELE476 PSEGKIKHSG486 RISFCSQFSW 496 IMPGTIKENI506 IGVSYDEYRY517 RSVIKACQLE527 EDISKFAEKD537 NIVLGEGGIT 547 LSGGQRARIS557 LARAVYKDAD567 LYLLDSPFGY577 LDVLTEKEIF587 ESCVCKLMAN 597 KTRILVTSKM607 EHLKKADKIL617 ILHEGSSYFY627 GTFSELQNLW846 NTYLRYITVH 856 KSLIFVLIWC866 LVIFLAEVAA876 SLVVLWLLGN886 TPSYAVIITS909 TSSYYVFYIY 919 VGVADTLLAM929 GFFRGLPLVH939 TLITVSKILH949 HKMLHSVLQA959 PMSTLNTLKA 969 GGILNRFSKD979 IAILDDLLPL989 TIFDFIQLLL999 IVIGAIAVVA1009 VLQPYIFVAT 1019 VPVIVAFIML1029 RAYFLQTSQQ1039 LKQLESEGRS1049 PIFTHLVTSL1059 KGLWTLRAFG 1069 RQPYFETLFH1079 KALNLHTANW1089 FLYLSTLRWF1099 QMRIEMIFVI1109 FFIAVTFISI 1119 LTTGEGEGRV1129 GIILTLAMNI1139 MSTLQWAVNS1149 SIDVDSLMRS1159 VSRVFKFIDM 1169 PTEGIWPSGG1208 QMTVKDLTAK1218 YTEGGNAILE1228 NISFSISPGQ1238 RVGLLGRTGS 1248 GKSTLLSAFL1258 RLLNTEGEIQ1268 IDGVSWDSIT1278 LQQWRKAFGV1288 IPQKVFIFSG 1298 TFRKNLDPYE1308 QWSDQEIWKV1318 ADEVGLRSVI1328 EQFPGKLDFV1338 LVDGGCVLSH 1348 GHKQLMCLAR1358 SVLSKAKILL1368 LDQPSAHLDP1378 VTYQIIRRTL1388 KQAFADCTVI 1398 LCEHRIEAML1408 ECQQFLVIEE1418 NKVRQYDSIQ1428 K
|
|||||
|
ASP173
3.256
TRP401
3.622
VAL440
3.975
SER459
3.439
THR460
3.507
GLY461
3.373
ALA462
3.100
GLY463
3.066
LYS464
3.123
THR465
2.816
SER466
3.549
GLN493
3.571
LYS532
4.853
PHE533
3.846
ILE546
3.813
THR547
3.246
LEU548
4.315
SER549
2.487
GLY550
3.813
|
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PDB ID: 1XMI Crystal structure of human F508A NBD1 domain with ATP | ||||||
Method | X-ray diffraction | Resolution | 2.25 Å | Mutation | Yes | [2] |
PDB Sequence |
STTEVVMENV
397 TAFWEEGFGE407 LFEKSFSNFS434 LLGTPVLKDI444 NFKIERGQLL454 AVAGSTGAGK 464 TSLLMMIMGE474 LEPSEGKIKH484 SGRISFCSQF494 SWIMPGTIKE504 NIIAGVSYDE 514 YRYRSVIKAC524 QLEEDISKFA534 EKDNIVLGEG544 GITLSGGQRA554 RISLARAVYK 564 DADLYLLDSP574 FGYLDVLTEK584 EIFESCVCKL594 MANKTRILVT604 SKMEHLKKAD 614 KILILHEGSS624 YFYGTFSELQ634 NLQPDFSSKL644 MGCDSFDQFS654 AERRNSILTE 664 TLRRFSL
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Click to Show 3D Structure of This Binding Site
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PDB ID: 2BBS Human deltaF508 NBD1 with three solubilizing mutations | ||||||
Method | X-ray diffraction | Resolution | 2.05 Å | Mutation | Yes | [3] |
PDB Sequence |
STTEVVMENV
397 TAFWEEGFGE407 LFEKAKGTPV440 LKDINFKIER450 GQLLAVAGST460 GAGKTSLLMM 470 IMGELEPSEG480 KIKHSGRISF490 CSQNSWIMPG500 TIKENIIGVS511 YDEYRYRSVI 521 KACQLEEDIS531 KFAEKDNIVL541 ITLSGGQRAR555 ISLARAVYKD565 ADLYLLDSPF 575 GYLDVLTEKE585 IFESCVCKLM595 ANKTRILVTS605 KMEHLKKADK615 ILILHEGSSY 625 FYGTFSELQN635 LRPDFSSKLM645 SFDQFSAERR658 NSILTETLHR668 FSL |
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Click to Show 3D Structure of This Binding Site
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PDB ID: 4WZ6 Human CFTR aa389-678 (NBD1), deltaF508 with three solubilizing mutations, bound ATP | ||||||
Method | X-ray diffraction | Resolution | 2.05 Å | Mutation | Yes | [4] |
PDB Sequence |
TTEVVMENVT
398 AFWEEGFGEL408 FEKAKQSLLG437 TPVLKDINFK447 IERGQLLAVA457 GSTGAGKTSL 467 LMMIMGELEP477 SEGKIKHSGR487 ISFCSQNSWI497 MPGTIKENII507 GVSYDEYRYR 517 SVIKACQLEE527 DISKFAEKDN537 IVLGITLSGG550 QRARISLARA560 VYKDADLYLL 570 DSPFGYLDVL580 TEKEIFESCV590 CKLMANKTRI600 LVTSKMEHLK610 KADKILILHE 620 GSSYFYGTFS630 ELQNLRPDFS640 SKLMSFDQFS653 AERRNSILTE663 TLHRFSLE |
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Click to Show 3D Structure of This Binding Site
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PDB ID: 1XMJ Crystal structure of human deltaF508 human NBD1 domain with ATP | ||||||
Method | X-ray diffraction | Resolution | 2.30 Å | Mutation | Yes | [2] |
PDB Sequence |
EVVMENVTAF
400 WETPVLKDIN445 FKIERGQLLA455 VAGSTGAGKT465 SLLMMIMGEL475 EPSEGKIKHS 485 GRISFCSQFS495 WIMPGTIKEN505 IIGVSYDEYR516 YRSVIKACQL526 EEDISKFAEK 536 DNIVLGEGGI546 TLSEGQQAKI556 SLARAVYKDA566 DLYLLDSPFG576 YLDVLTEKEI 586 FESCVCKLMA596 NKTRILVTSK606 MEHLKKADKI616 LILHEGSSYF626 YGTFSELQNL 636 QPDFSSKLMS649 FDQFSAERRN659 SILTETLRRF669 SLEGDA
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Click to Show 3D Structure of This Binding Site
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PDB ID: 2BBT Human deltaF508 NBD1 with two solublizing mutations. | ||||||
Method | X-ray diffraction | Resolution | 2.30 Å | Mutation | Yes | [3] |
PDB Sequence |
TEVVMENVTA
399 FWEEGFGELF409 EKAKGTPVLK442 DINFKIERGQ452 LLAVAGSTGA462 GKTSLLMMIM 472 GELEPSEGKI482 KHSGRISFCS492 QNSWIMPGTI502 KENIIGVSYD513 EYRYRSVIKA 523 CQLEEDISKF533 AEKDNIVLGG545 ITLSGGQRAR555 ISLARAVYKD565 ADLYLLDSPF 575 GYLDVLTEKE585 IFESCVCKLM595 ANKTRILVTS605 KMEHLKKADK615 ILILHEGSSY 625 FYGTFSELQN635 LRPDFSSDSF650 DQFSAERRNS660 ILTETLHRF
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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 .ATP or .ATP2 or .ATP3 or :3ATP;style chemicals stick;color identity;select .A:401 or .A:440 or .A:459 or .A:460 or .A:461 or .A:462 or .A:463 or .A:464 or .A:465 or .A:466 or .A:493; color #f3c393; zoom selection;set surface opacity 0.5;set surface Van der Waals surface;set mode all
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PDB ID: 2PZF Minimal human CFTR first nucleotide binding domain as a head-to-tail dimer with delta F508 | ||||||
Method | X-ray diffraction | Resolution | 2.00 Å | Mutation | Yes | [5] |
PDB Sequence |
SLTTTEVVME
395 NVTAFWGGTP439 VLKDINFKIE449 RGQLLAVAGS459 TGAGKTSLLM469 MIMGELEPSE 479 GKIKHSGRIS489 FCSQFSWIMP499 GTIKENIIGV510 SYDEYRYRSV520 IKACQLEEDI 530 SKFAEKDNIV540 LGEGGITLSG550 GQRARISLAR560 AVYKDADLYL570 LDSPFGYLDV 580 LTEKEIFESC590 VCKLMANKTR600 ILVTSKMEHL610 KKADKILILH620 EGSSYFYGTF 630 SELQNLDFSS642 KLMG
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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 .ATP or .ATP2 or .ATP3 or :3ATP;style chemicals stick;color identity;select .A:401 or .A:440 or .A:458 or .A:459 or .A:460 or .A:461 or .A:462 or .A:463 or .A:464 or .A:465 or .A:466 or .A:493; color #00ffc7; zoom selection;set surface opacity 0.5;set surface Van der Waals surface;set mode all
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PDB ID: 6WBS Human CFTR first nucleotide binding domain with dF508/V510D | ||||||
Method | X-ray diffraction | Resolution | 1.86 Å | Mutation | Yes | [6] |
PDB Sequence |
TTTEVVMENV
429 TAFWEEGGTP439 VLKDINFKIE449 RGQLLAVAGS459 TGAGKTSLLM469 VIMGELEPSE 479 GKIKHSGRIS489 FCSQFSWIMP499 GTIKENIIGD510 SYDEYRYRSV520 IKACQLEEDI 530 SKFAEKDNIV540 LGEGGITLSG550 GQRARISLAR560 AVYKDADLYL570 LDSPFGYLDV 580 LTEKEIFESC590 VCKLMANKTR600 ILVTSKMEHL610 KKADKILILH620 EGSSYFYGTF 630 SELQN
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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 .ATP or .ATP2 or .ATP3 or :3ATP;style chemicals stick;color identity;select .A:433 or .A:434 or .A:440 or .A:458 or .A:459 or .A:460 or .A:461 or .A:462 or .A:463 or .A:464 or .A:465 or .A:466 or .A:467 or .A:469 or .A:493; color #f3c393; zoom selection;set surface opacity 0.5;set surface Van der Waals surface;set mode all
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References | Top | ||||
---|---|---|---|---|---|
REF 1 | Molecular structures reveal synergistic rescue of Delta508 CFTR by Trikafta modulators. Science. 2022 Oct 21;378(6617):284-290. | ||||
REF 2 | Impact of the deltaF508 mutation in first nucleotide-binding domain of human cystic fibrosis transmembrane conductance regulator on domain folding and structure. J Biol Chem. 2005 Jan 14;280(2):1346-53. | ||||
REF 3 | Structure and dynamics of NBD1 from CFTR characterized using crystallography and hydrogen/deuterium exchange mass spectrometry. J Mol Biol. 2010 Feb 19;396(2):406-30. | ||||
REF 4 | Binding screen for cystic fibrosis transmembrane conductance regulator correctors finds new chemical matter and yields insights into cystic fibrosis therapeutic strategy. Protein Sci. 2016 Feb;25(2):360-73. | ||||
REF 5 | Structures of a minimal human CFTR first nucleotide-binding domain as a monomer, head-to-tail homodimer, and pathogenic mutant. Protein Eng Des Sel. 2010 May;23(5):375-84. | ||||
REF 6 | Determining the Molecular Mechanism of Suppressor Mutation V510D and the Contribution of Helical Unraveling to the dF508-CFTR Defect |
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