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