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