DRSC/TRiP Functional Genomics Resources

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Protein Alignment nAChRalpha3 and cup-4

DIOPT Version :10

Sequence 1:NP_525079.3 Gene:nAChRalpha3 / 31767 FlyBaseID:FBgn0015519 Length:795 Species:Drosophila melanogaster
Sequence 2:NP_498710.2 Gene:cup-4 / 176104 WormBaseID:WBGene00000845 Length:433 Species:Caenorhabditis elegans


Alignment Length:388 Identity:87/388 - (22%)
Similarity:151/388 - (38%) Gaps:89/388 - (22%)


- Green bases have known domain annotations that are detailed below.


  Fly    15 SFISSSTANPDAKRLYDDLLSNYNKLVRPVVNVTDALTVRIKLKLSQLIDVNLKNQIMTTNLWVE 79
            ||.:.|.:...: .|...:...||...||:.|.:....|.:...:.. :.:|.:.|.||.:..:.
 Worm    38 SFFNKSYSEHQS-ALEQKIFRGYNPKNRPMKNASFPTIVDVHWHIIH-VSINQREQTMTVHGHIY 100

  Fly    80 QSWYDYKLKWEPKEYGGVEMLHVPSDHIWRPDIVLYNNADG---NFEVTLATKATLNYTG----R 137
            ..|:|..|.|:||::..::...|....:|:|.|.:.|:|.|   .|:.:.:....:...|    :
 Worm   101 MRWFDEFLVWDPKDFNNIQYARVKKWQVWQPKIKVSNSASGLGSAFDFSTSAHVIIQMMGKDRAK 165

  Fly   138 VEWRPPAIYKSSCEIDVEYFPFDEQTCVMKFGSWTYDGFQVDLRHIDELNGTNVVEVGVDLSEFY 202
            ||..|....|..|..|...:|:|...|.:...| |.....|.|:::..:..|             
 Worm   166 VEMYPTFSIKVGCAFDFTDYPYDLNKCAINLFS-TSTMADVQLQNLYAIPPT------------- 216

  Fly   203 TSVEWDILEVPAVRNEKFYTCCDEPYLDITFNI-TMRRKTLFYT---VNLIIPCMGISFLTILVF 263
            .|..|:..::..:.::              |.| .:....|:||   :....|..|.        
 Worm   217 LSFGWEEQKMKRIISD--------------FKIQNVSSSALYYTNGNITSSAPITGF-------- 259

  Fly   264 YLPSDSGEKVSLSISILLSLTVFF-----LLLAEIIPPTSLVVPLLGKFVLFTMILDTFSICVTV 323
                |.|...|     :|::||.|     |..|.::.|..:|..|:.    .|..:|  |:..|.
 Worm   260 ----DLGSTWS-----MLAVTVSFVRHSPLFEAAVVTPCIVVASLIS----MTFFID--SLSSTF 309

  Fly   324 LVLNIHFRSPQTHTMAPWVRTVFINQLPRFLVMRRPLYPISEM---IKSSRRLMVRTCNGLEL 383
            |::.:||          :|:.:|::.    ||.:.|| .:||:   ||....||.  .|||.|
 Worm   310 LLMMLHF----------YVQLIFLHD----LVEKLPL-SVSEIPFCIKLIGILMY--TNGLTL 355

Known Domains:


Indicated by green bases in alignment.

GeneSequenceDomainRegion External IDIdentity
nAChRalpha3NP_525079.3 LGIC_ECD_nAChR_proto_alpha-like 25..243 CDD:349832 44/225 (20%)
Cys-loop 150..164 CDD:349832 4/13 (31%)
LGIC_TM_nAChR 242..>331 CDD:349866 23/96 (24%)
TM1 helix 242..266 CDD:349866 5/26 (19%)
TM2 helix 274..295 CDD:349866 7/25 (28%)
TM3 helix 306..328 CDD:349866 5/21 (24%)
Neur_chan_memb <683..760 CDD:460753
cup-4NP_498710.2 LGIC_ECD_cation 73..246 CDD:349790 39/201 (19%)
Cys-loop 178..192 CDD:349790 4/13 (31%)
Blue background indicates that the domain is not in the aligned region.

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