HHsearch alignment for GI: 254780545 and conserved domain: cd04155

>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=96.45  E-value=0.0044  Score=41.31  Aligned_cols=103  Identities=23%  Similarity=0.375  Sum_probs=58.0

Q ss_pred             CEEECCCCCHHHHHHHHHHHCCCCCCEECCCHHHHH---------HHHHHCCHHHHHHHHHHHHHHCCHHEEH-HHHHHH
Q ss_conf             110037874258889999742469970205857886---------4442033245999999998737801206-323564
Q gi|254780545|r  183 GVLLVGPPGTGKTLLARAVAGEANVPFFTISGSDFV---------ELFVGVGASRVRDMFEQAKNNSPCIVFV-DEIDAV  252 (647)
Q Consensus       183 g~ll~GppGtGKTlla~a~a~e~~~~f~~~~~s~~~---------~~~~g~g~~~vr~lf~~a~~~~p~iifi-Deida~  252 (647)
T Consensus        16 Ki~ilG~~~sGKTsll~~l~~~~~~~~~pT~g~~~~~v~~~~~~~~lwD~~G~~~~~~~~~~y~~~a~~iI~VvD~td~-   94 (173)
T cd04155          16 RILILGLDNAGKTTILKQLASEDISHITPTQGFNIKTVQSDGFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADK-   94 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEEECCEEEEEEECCCCHHHHHHHHHHCCCCCEEEEEEECCCH-
T ss_conf             8999979999889999998569986606811323799998999999985587510126899765556379999966756-


Q ss_pred             HCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCCC
Q ss_conf             14455789886268898899899853032357782999962981008
Q gi|254780545|r  253 GRHRGIGLGGGNDEREQTLNQLLVEMDGFESSEGVILIAATNRPDVL  299 (647)
Q Consensus       253 ~~~r~~~~~~~~~e~~~~ln~ll~~mdg~~~~~~v~vi~aTn~~~~l  299 (647)
T Consensus        95 --~-------~~~~~~~~l~~~l~~~~--~~~~PiLiv~--NK~Dl~  128 (173)
T cd04155          95 --K-------RLEEAGAELVELLEEEK--LAGVPVLVFA--NKQDLA  128 (173)
T ss_pred             --H-------HHHHHHHHHHHHHHHHH--CCCCCEEEEE--ECCCCC
T ss_conf             --8-------89999999999974130--0698389999--766677