HHsearch alignment for GI: 254780709 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=97.06  E-value=0.0013  Score=45.75  Aligned_cols=138  Identities=14%  Similarity=0.215  Sum_probs=67.1

Q ss_pred             CCCCCEEECCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf             66741231135444442478999999985226742677434512456889999975303532122358661245422899
Q gi|254780709|r  108 SHRPHVILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALAYEAFK  187 (321)
Q Consensus       108 ~~~p~vil~vG~nG~GKTTT~aKLA~~~~~~g~kV~lva~DtfR~aA~eQL~~~a~~~~v~~~~~~~~~dp~~v~~~a~~  187 (321)
T Consensus        11 ~~~~~Ki~ilG~~~sGKTsll~~l~~----~~~~~------------------~~pT~g~~~---------~~v------   53 (173)
T cd04155          11 SSEEPRILILGLDNAGKTTILKQLAS----EDISH------------------ITPTQGFNI---------KTV------   53 (173)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHC----CCCCC------------------CCCCCCEEE---------EEE------
T ss_conf             68775899997999988999999856----99866------------------068113237---------999------


Q ss_pred             HHHHHCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHH-HHHHHHCC---CC----
Q ss_conf             99651487599865433321157789999899876302223430112310233522577899-98764358---97----
Q gi|254780709|r  188 QAQAKKVDVLIIDTAGRLHNNSILMAGIGKMIRVLKRLDPHAPHSVLQVLDATTGQNALRQV-EMFHAVAG---TT----  259 (321)
Q Consensus       188 ~a~~~~~DvvliDTAGR~~~~~~lm~EL~ki~~v~~~~~~~~p~~~~lVlda~~gq~~~~~a-~~F~~~~~---~~----  259 (321)
T Consensus        54 --~~~~~~~~lwD~~G~~~-----~~~~~------~~y~~-~a~~iI~VvD~td~-~~~~~~~~~l~~~l~~~~~~~~Pi  118 (173)
T cd04155          54 --QSDGFKLNVWDIGGQRA-----IRPYW------RNYFE-NTDCLIYVIDSADK-KRLEEAGAELVELLEEEKLAGVPV  118 (173)
T ss_pred             --EECCEEEEEEECCCCHH-----HHHHH------HHHCC-CCCEEEEEEECCCH-HHHHHHHHHHHHHHHHHHCCCCCE
T ss_conf             --98999999985587510-----12689------97655-56379999966756-889999999999974130069838


Q ss_pred             EEEEECCCCCC-----CHHHHHHHHHHHCCCEEEEE----CCCCCCC
Q ss_conf             69996545787-----06999999999769889997----5898132
Q gi|254780709|r  260 GLIMTKMDGTA-----RGGGLIPIVVTHKIPVYFLG----VGEGIND  297 (321)
Q Consensus       260 g~I~TKlD~ta-----~~G~~ls~~~~~~~Pi~fig----~Ge~i~D  297 (321)
T Consensus       119 Liv~NK~Dl~~a~~~~eI~~~l~l~~~~~~~~~i~~~SA~tG~Gi~E  165 (173)
T cd04155         119 LVFANKQDLATAAPAEEIAEALNLHDLRDRTWHIQACSAKTGEGLQE  165 (173)
T ss_pred             EEEEECCCCCCCCCHHHHHHHHCHHHCCCCCCEEEEEECCCCCCHHH
T ss_conf             99997666777899999999858764348875899957857939899