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