HHsearch alignment for GI: 254780217 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=92.84 E-value=0.38 Score=28.92 Aligned_cols=136 Identities=18% Similarity=0.185 Sum_probs=65.6
Q ss_pred HHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHH
Q ss_conf 99999982889816631179898889999999999817799886431210126788679999678987545300100010
Q gi|254780217|r 23 FLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPK 102 (347)
Q Consensus 23 ~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k 102 (347)
T Consensus 4 ~~~~~k~~~~~~K-i~ilG~~~sGKTsll~~l~~~~~----~~~~pT~g~~----------~~~v~~~~~~-~~-lwD~~ 66 (173)
T cd04155 4 LLRKLRKSSEEPR-ILILGLDNAGKTTILKQLASEDI----SHITPTQGFN----------IKTVQSDGFK-LN-VWDIG 66 (173)
T ss_pred HHHHHHCCCCCCE-EEEECCCCCCHHHHHHHHHCCCC----CCCCCCCCEE----------EEEEEECCEE-EE-EEECC
T ss_conf 8877655687758-99997999988999999856998----6606811323----------7999989999-99-98558
Q ss_pred CCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-HHHHHHHHHHHHCC-CCCCEEEEECCCCCCCHHHHCE
Q ss_conf 134212323788755443102221111210353220554240-00145677766303-4341676504433573025203
Q gi|254780217|r 103 TGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-NAANALLKSLEEPP-QKVLFILISHASPTILSTIRSR 180 (347)
Q Consensus 103 ~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-~AaNALLK~LEEPp-~~t~fiLit~~~~~il~TI~SR 180 (347)
T Consensus 67 G--------~~~~~~~~~~y~~~-a--~~iI~VvD~td~~~~~~~~~~l~~~l~~~~~~~~PiLiv~NK~D-l~------ 128 (173)
T cd04155 67 G--------QRAIRPYWRNYFEN-T--DCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQD-LA------ 128 (173)
T ss_pred C--------CHHHHHHHHHHCCC-C--CEEEEEEECCCHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCC-CC------
T ss_conf 7--------51012689976555-6--37999996675688999999999997413006983899997666-77------
Q ss_pred EEEEECCCCCHHHHHHHHH
Q ss_conf 6988647999899999999
Q gi|254780217|r 181 CLSIKFNSLSENNLYKALE 199 (347)
Q Consensus 181 c~~i~f~~l~~~~~~~~L~ 199 (347)
T Consensus 129 ------~a~~~~eI~~~l~ 141 (173)
T cd04155 129 ------TAAPAEEIAEALN 141 (173)
T ss_pred ------CCCCHHHHHHHHC
T ss_conf ------7899999999858