HHsearch alignment for GI: 254780787 and conserved domain: cd04106
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=99.03 E-value=9.7e-10 Score=84.59 Aligned_cols=146 Identities=21% Similarity=0.337 Sum_probs=95.7
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEECCCEE----EE--ECCC--CEEEEEECCCHHHHHHHHHHHHHCCCCE
Q ss_conf 89862368504467778864222100123100012149----99--5178--4388885166157899986664206805
Q gi|254780787|r 386 VTIMGHVDHGKTSLLDAIRKADVAKGEIGGITQHIGAY----QV--AYQG--KNITFLDTPGHAAFYEMRARGARVTDIA 457 (884)
Q Consensus 386 v~v~ghvd~GKt~lld~~r~~~~~~~e~ggitq~iga~----~~--~~~~--~~~~~iDtPGh~~f~~~r~rg~~~~d~~ 457 (884)
T Consensus 3 ivvlGd~~VGKTsLi~r~~~~~f~~~----y~~Tig~~~~~k~i~~~~~~~~v~l~iwDtaG~e~~~~l~~~~~~~a~~~ 78 (162)
T cd04106 3 VIVVGNGNVGKSSMIQRFVKGIFTKD----YKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQAC 78 (162)
T ss_pred EEEECCCCCCHHHHHHHHHHCCCCCC----CCCCCCCEEEEEEEEECCCCEEEEEEEEECCCCCCCCCCHHHHHHHHCCE
T ss_conf 99999999889999999984968987----68855625788789986799799999997899701341524561230312
Q ss_pred EEEEECCCCCCHHHHHHHHH-H--HHCCCCEEEECCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEEEEECCCCCCC
Q ss_conf 99998366740235777898-9--97099415612331244332000221000013200012347403631100247741
Q gi|254780787|r 458 VLVLAADEEIMPQAIESINH-A--KAADVSIIVAINKIDKLGADPQKVRMSLLKHDVFVESMGGDILDVEISAKNNLNLD 534 (884)
Q Consensus 458 ilvv~~~~g~~~qt~e~~~~-~--~~~~~p~iva~nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 534 (884)
T Consensus 79 ilvydvt~~~Sf~~l~~w~~~~~~~~~~~piilVgNK~DL~~~r--~V~~~e--~~~~a~~~--~~~~~E~SAk~~~nV~ 152 (162)
T cd04106 79 ILVFSTTDRESFEAIESWKEKVEAECGDIPMVLVQTKIDLLDQA--VITNEE--AEALAKRL--QLPLFRTSVKDDFNVT 152 (162)
T ss_pred EEEEECCCHHHHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHCC--CCCHHH--HHHHHHHC--CCEEEEECCCCCCCHH
T ss_conf 68840698899999999999999766996299984054441017--789999--99999986--9879998688882989
Q ss_pred CCCCCHH
Q ss_conf 1221000
Q gi|254780787|r 535 KLLDAIL 541 (884)
Q Consensus 535 ~~~~~~~ 541 (884)
T Consensus 153 e~F~~la 159 (162)
T cd04106 153 ELFEYLA 159 (162)
T ss_pred HHHHHHH
T ss_conf 9999999