HHsearch alignment for GI: 254780809 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=99.36  E-value=3.2e-12  Score=104.55  Aligned_cols=132  Identities=22%  Similarity=0.207  Sum_probs=90.4

Q ss_pred             CCEEEECCCCCCHHHHHHHHHCCHHCCCCCCCCCC-EEECCCCCC--CCCE--EEEEEECCHHCCCCHHHHHHHHHHHHH
Q ss_conf             30243114663188899998552000234546872-110001245--6835--899950810002410356666788899
Q gi|254780809|r  220 YKIVILGHSNAGKSSLFNALAKKDVAIVTDIPGTT-RDVLTIDLD--LEGY--LVKISDTAGIRETDDIVEKEGIKRTFL  294 (440)
Q Consensus       220 ~~v~i~G~pN~GKSSL~N~L~~~~~aIVs~~~GTT-RD~i~~~~~--i~g~--~~~l~DTaGir~t~d~IE~~GI~ra~~  294 (440)
T Consensus         1 iKivvlGd~~VGKTsLi~r~~~~~f--~~~y~~Tig~~~~~k~i~~~~~~~~v~l~iwDtaG~e~~~~--------l~~~   70 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIF--TKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDA--------ITKA   70 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCCC--CCCCCCCCCCEEEEEEEEECCCCEEEEEEEEECCCCCCCCC--------CHHH
T ss_conf             9899999999889999999984968--98768855625788789986799799999997899701341--------5245


Q ss_pred             HHHHHCCEEECCCCCCHHHHHH-----------HCCCCCCCCCCCCCCCCCCCHH-------------HHHHHHHHHHHH
Q ss_conf             8503011020135898566343-----------1289853222233344654200-------------000133332323
Q gi|254780809|r  295 EVENADLILLLKEINSKKEISF-----------PKNIDFIFIGTKSDLYSTYTEE-------------YDHLISSFTGEG  350 (440)
Q Consensus       295 ~i~~aDlil~v~D~~~~~~~~~-----------~~~~~~i~V~NK~Dl~~~~~~~-------------~~~~ISaktg~G  350 (440)
T Consensus        71 ~~~~a~~~ilvydvt~~~Sf~~l~~w~~~~~~~~~~~piilVgNK~DL~~~r~V~~~e~~~~a~~~~~~~~E~SAk~~~n  150 (162)
T cd04106          71 YYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFN  150 (162)
T ss_pred             HHHHHCCEEEEEECCCHHHHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHCCCCCHHHHHHHHHHCCCEEEEECCCCCCC
T ss_conf             61230312688406988999999999999997669962999840544410177899999999998698799986888829


Q ss_pred             HHHHHHHHHHH
Q ss_conf             58999999999
Q gi|254780809|r  351 LEELINKIKSI  361 (440)
Q Consensus       351 i~~L~~~I~~~  361 (440)
T Consensus       151 V~e~F~~la~k  161 (162)
T cd04106         151 VTELFEYLAEK  161 (162)
T ss_pred             HHHHHHHHHHH
T ss_conf             89999999960