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