DRSC/TRiP Functional Genomics Resources

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Protein Alignment nAChRalpha1 and Htr3b

DIOPT Version :10

Sequence 1:NP_001262916.1 Gene:nAChRalpha1 / 42918 FlyBaseID:FBgn0000036 Length:597 Species:Drosophila melanogaster
Sequence 2:NP_071525.1 Gene:Htr3b / 58963 RGDID:61820 Length:437 Species:Rattus norvegicus


Alignment Length:400 Identity:103/400 - (25%)
Similarity:181/400 - (45%) Gaps:53/400 - (13%)


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


  Fly     3 SVLFAAVFIALHFATGGLANPDAKRLYDDLLSNYNRLIRPVGNNSDRLTVKMGLRLSQLIDVNLK 67
            |.|..||...|..||....|....||...||..|::.:|||.|.::..||.:.|.:..::||:::
  Rat     6 SCLLVAVVGILGTATPQPGNSSLHRLTRQLLQQYHKEVRPVYNWAEATTVYLDLCVHAVLDVDVQ 70

  Fly    68 NQIMTTNVWVEQEWNDYKLKWNPDDYGGVDTLHVPSEHIWLPDIVL---------------YNNA 117
            ||.:.|::|..:.|||..|.||...:..:..:.:|...||.|||::               |.|:
  Rat    71 NQKLKTSMWYREVWNDEFLSWNSSLFDDIQEISLPLSAIWAPDIIINEFVDVERSPDLPYVYVNS 135

  Fly   118 DGNYEVTIMTKAILHHTGKVVWKPPAIYKSFCEIDVEYFPFDEQTCFMKFGSWTYDGYMVDLRHL 182
            .|         .|.:|      ||..:. |.|.:....||||.|.|.:.|.|..:....:||..|
  Rat   136 SG---------TIRNH------KPIQVV-SACSLQTYAFPFDIQNCSLTFNSILHTVEDIDLGFL 184

  Fly   183 KQTADSDNIEVGIDLQDYYISVEWDIMRVPAVRNEKFYSCCEEPYLDIVFNLTLRRKTLFYTVNL 247
            :...|.:|     |.:.:....||.::.|.:..:.:..|..:  :..|.||:.:||..|.|.|:|
  Rat   185 RNQEDIEN-----DKRSFLNDSEWQLLSVTSTYHIRQSSAGD--FAQIRFNVVIRRCPLAYVVSL 242

  Fly   248 IIPCVGISFLSVLVFYLPSDSGEKISLCISILLSLTVFFLLLAEIIPPTSLTVPLLGKYLLFTMM 312
            :||.:.:..:.:..||||.:...:|....::|:..|||.:.:::.:|.::....|:|.:....|.
  Rat   243 LIPSIFLMLVDLGSFYLPPNCRARIVFKTNVLVGYTVFRVNMSDEVPRSAGCTSLIGVFFTVCMA 307

  Fly   313 LVTLSVVVTIAVLNVNFRSPVTHRMAPWV----------QRLFIQILPKLLCIERPKKEEPEEDQ 367
            |:.||:..:|.::...:....:.:..|.:          .||::    :..|.|..:....:|.|
  Rat   308 LLVLSLSKSILLIKFLYEERHSEQERPLMCLRGDSDANESRLYL----RAPCAEDTESPVRQEHQ 368

  Fly   368 -PPEVLTDVY 376
             |.:.|.|.:
  Rat   369 VPSDTLKDFW 378

Known Domains:


Indicated by green bases in alignment.

GeneSequenceDomainRegion External IDIdentity
nAChRalpha1NP_001262916.1 LGIC_ECD_nAChR_proto_alpha-like 24..242 CDD:349832 62/232 (27%)
LIC 27..530 CDD:455710 95/375 (25%)
Cys-loop 149..163 CDD:349832 6/13 (46%)
Htr3bNP_071525.1 LGIC_ECD 25..233 CDD:475126 61/230 (27%)
LGIC_TM_5-HT3 236..432 CDD:349865 33/146 (23%)
TM1 helix 236..260 CDD:349865 8/23 (35%)
TM2 helix 268..289 CDD:349865 4/20 (20%)
TM3 helix 300..322 CDD:349865 5/21 (24%)
HA-stretch, determines single-channel conductance in 5-HT3 receptors. /evidence=ECO:0000250|UniProtKB:O95264 377..409 0/1 (0%)
TM4 helix 407..429 CDD:349865
Blue background indicates that the domain is not in the aligned region.

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