HHsearch alignment for GI: 254780648 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=99.84  E-value=4.6e-21  Score=147.53  Aligned_cols=154  Identities=19%  Similarity=0.125  Sum_probs=104.9

Q ss_pred             ECEEEEECCCCCCCEEEEEECCCCCHHHHHHHCCCEECCEEEEECCEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             01124421677753035410145401212110000001026632986899822642124731167751234433333578
Q gi|254780648|r  160 ADIGIIGLPNAGKSTFLASVTRAKPKIADYPFTTLYPNLGIVKEGYKEFILADIPGIIKNAHQGAGIGDRFLKHTERTHV  239 (335)
Q Consensus       160 aDVglVG~PNaGKSTLln~ls~ak~kIa~ypFTT~~P~lGvv~~~~~~~~i~D~PGlIegA~~~~glG~~FLrhIer~~v  239 (335)
T Consensus        15 ~Ki~ilG~~~sGKTsll~~l~~~~~--~~-~~pT~g~~~~~v~~~~~~~~lwD~~G~~----~~~~~~---~~y~~~a~~   84 (173)
T cd04155          15 PRILILGLDNAGKTTILKQLASEDI--SH-ITPTQGFNIKTVQSDGFKLNVWDIGGQR----AIRPYW---RNYFENTDC   84 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCC--CC-CCCCCCEEEEEEEECCEEEEEEECCCCH----HHHHHH---HHHCCCCCE
T ss_conf             5899997999988999999856998--66-0681132379999899999998558751----012689---976555637


Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHH--H--HCCCCEEEEECCCCCCH
Q ss_conf             8752022221101346667899877766750598899997465899889999999999--8--62994899988878899
Q gi|254780648|r  240 LLHIVSALEENVQAAYQCILDELSAYNSELRKKIEIVGLSQIDTVDSDTLARKKNELA--T--QCGQVPFEFSSITGHGI  315 (335)
Q Consensus       240 Ll~VVD~s~~d~~~~~~~I~~EL~~y~~~L~~Kp~IIVlNKiDl~~~e~~~~~~~~l~--~--~~~~~vi~ISA~tg~GI  315 (335)
T Consensus        85 iI~VvD~td~~~~~~~~~~l~~~l~-~~~~~~~PiLiv~NK~Dl~~a~~~~eI~~~l~l~~~~~~~~~i~~~SA~tG~Gi  163 (173)
T cd04155          85 LIYVIDSADKKRLEEAGAELVELLE-EEKLAGVPVLVFANKQDLATAAPAEEIAEALNLHDLRDRTWHIQACSAKTGEGL  163 (173)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHH-HHHCCCCCEEEEEECCCCCCCCCHHHHHHHHCHHHCCCCCCEEEEEECCCCCCH
T ss_conf             9999966756889999999999974-130069838999976667778999999998587643488758999578579398


Q ss_pred             HHHHHHHHH
Q ss_conf             999999999
Q gi|254780648|r  316 PQILECLHD  324 (335)
Q Consensus       316 ~eL~~~I~e  324 (335)
T Consensus       164 ~E~f~WL~~  172 (173)
T cd04155         164 QEGMNWVCK  172 (173)
T ss_pred             HHHHHHHHC
T ss_conf             999999854