HHsearch alignment for GI: 254780916 and conserved domain: cd00878

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu
Probab=92.47  E-value=0.91  Score=25.04  Aligned_cols=117  Identities=15%  Similarity=0.200  Sum_probs=49.8

Q ss_pred             EEEECCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCHH
Q ss_conf             88732777436799999984267543321012346554210024331125555322111001234466714751664200
Q gi|254780916|r  166 IMIQGEFGVGKKRLSRFIHESGKRAFFPFFIVNCGMIDQDKIEKFLFGDVDLQTKNSAQFLGKFIEANGGTIVLEEPDAL  245 (482)
Q Consensus       166 vli~Ge~GtGK~~~A~~iH~~s~r~~~~fi~v~c~~~~~~~~e~~lFG~~~~~~~~~~~~~g~~~~a~~Gtl~l~ei~~L  245 (482)
T Consensus         2 i~ilG~~~vGKTsll~~l~~~~~~~~~pTig~~~~~i~~~~~~l~iwDt-~G~~~~~~~~~~y~~~a~~~i~V~D~t~~~   80 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGEVVTTIPTIGFNVETVEYKNVSFTVWDV-GGQDKIRPLWKHYYENTNGIIFVVDSSDRE   80 (158)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCCCCCCCEECCCEEEEEECCEEEEEEEC-CCCCCCCHHHHHHHCCCCEEEEEEECCCHH
T ss_conf             9999999998899999995399887445607408999848899999988-997221448998727687768998379888


Q ss_pred             HHH-HHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCCHH
Q ss_conf             188-99988887764200112355321234315652143321111112
Q gi|254780916|r  246 PLA-VQGRIYNFIETGKIEFFDSRGAIRLDVRLIFLTEKNLLPQVKSH  292 (482)
Q Consensus       246 ~~~-~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiIa~t~~~L~~~~~~g  292 (482)
T Consensus        81 s~~~~~~~~~~~~~~~~------~~~~p---iliv~NK~Dl~~~~~~~  119 (158)
T cd00878          81 RIEEAKEELHKLLNEEE------LKGVP---LLIFANKQDLPGALSVS  119 (158)
T ss_pred             HHHHHHHHHHHHHHHCC------CCCCE---EEEEEECCCCCCCCCHH
T ss_conf             99999999999986605------57653---89876054766578999