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