HHsearch alignment for GI: 254780809 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=99.66  E-value=3.8e-16  Score=131.84  Aligned_cols=135  Identities=25%  Similarity=0.331  Sum_probs=99.1

Q ss_pred             HHHHHCCCEEEECCCCCCHHHHHHHHHCCHHCCCCCCCCCCEEECCCCCCCCCEEEEEEECCHHCCCCHHHHHHHHHHHH
Q ss_conf             54320230243114663188899998552000234546872110001245683589995081000241035666678889
Q gi|254780809|r  214 EIIRNGYKIVILGHSNAGKSSLFNALAKKDVAIVTDIPGTTRDVLTIDLDLEGYLVKISDTAGIRETDDIVEKEGIKRTF  293 (440)
Q Consensus       214 ~~l~~g~~v~i~G~pN~GKSSL~N~L~~~~~aIVs~~~GTTRD~i~~~~~i~g~~~~l~DTaGir~t~d~IE~~GI~ra~  293 (440)
T Consensus         9 k~~~~~~Ki~ilG~~~sGKTsll~~l~~~~~~~~~pT~g~----~~~~v~~~~~~~~lwD~~G~~~~~--------~~~~   76 (173)
T cd04155           9 RKSSEEPRILILGLDNAGKTTILKQLASEDISHITPTQGF----NIKTVQSDGFKLNVWDIGGQRAIR--------PYWR   76 (173)
T ss_pred             HCCCCCCEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCE----EEEEEEECCEEEEEEECCCCHHHH--------HHHH
T ss_conf             5568775899997999988999999856998660681132----379999899999998558751012--------6899


Q ss_pred             HHHHHHCCEEECCCCCCHHHHH-------------HHCCCCCCCCCCCCCCCCCCCHH----------------HHHHHH
Q ss_conf             9850301102013589856634-------------31289853222233344654200----------------000133
Q gi|254780809|r  294 LEVENADLILLLKEINSKKEIS-------------FPKNIDFIFIGTKSDLYSTYTEE----------------YDHLIS  344 (440)
Q Consensus       294 ~~i~~aDlil~v~D~~~~~~~~-------------~~~~~~~i~V~NK~Dl~~~~~~~----------------~~~~IS  344 (440)
T Consensus        77 ~y~~~a~~iI~VvD~td~~~~~~~~~~l~~~l~~~~~~~~PiLiv~NK~Dl~~a~~~~eI~~~l~l~~~~~~~~~i~~~S  156 (173)
T cd04155          77 NYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAPAEEIAEALNLHDLRDRTWHIQACS  156 (173)
T ss_pred             HHCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCHHHHHHHHCHHHCCCCCCEEEEEE
T ss_conf             76555637999996675688999999999997413006983899997666777899999999858764348875899957


Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             3323235899999999
Q gi|254780809|r  345 SFTGEGLEELINKIKS  360 (440)
Q Consensus       345 aktg~Gi~~L~~~I~~  360 (440)
T Consensus       157 A~tG~Gi~E~f~WL~~  172 (173)
T cd04155         157 AKTGEGLQEGMNWVCK  172 (173)
T ss_pred             CCCCCCHHHHHHHHHC
T ss_conf             8579398999999854