HHsearch alignment for GI: 254780711 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=95.60  E-value=0.034  Score=36.95  Aligned_cols=132  Identities=22%  Similarity=0.376  Sum_probs=61.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHC
Q ss_conf             99623443334688999999998614895078205422100477999985103474222332103689999999999741
Q gi|254780711|r  103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSARDG  182 (461)
Q Consensus       103 IllvGl~GsGKTTT~aKLA~~~~~~~~~kV~lv~~Dt~R~aA~eQL~~~a~~~~v~~~~~~~~~dp~~i~~~a~~~a~~~  182 (461)
T Consensus         2 i~ilG~~~vGKTsll~~l~----~--~~-~--~--~~-~p-----------Tig~~~~~i-----------------~~~   41 (158)
T cd00878           2 ILILGLDGAGKTTILYKLK----L--GE-V--V--TT-IP-----------TIGFNVETV-----------------EYK   41 (158)
T ss_pred             EEEECCCCCCHHHHHHHHH----C--CC-C--C--CC-CC-----------EECCCEEEE-----------------EEC
T ss_conf             9999999998899999995----3--99-8--8--74-45-----------607408999-----------------848


Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHCCHHHHHHHH-HHHHHC---CCC----CEEEEECCCCC
Q ss_conf             5886998334422211246899999985138511000310111225688889-887635---844----07764115766
Q gi|254780711|r  183 GYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLAR-NFDKIV---DLT----GIILTRMDGDG  254 (461)
Q Consensus       183 ~~D~iiiDTaGR~~~d~~lm~El~~i~~~~~p~e~~lV~da~~Gq~a~~~a~-~F~~~~---~i~----giIlTKlD~~a  254 (461)
T Consensus        42 ~~~l~iwDt~G~~~~-----~~~~~~y-~~~a~~~i~V~D~t~-~~s~~~~~~~~~~~~~~~~~~~~piliv~NK~Dl~~  114 (158)
T cd00878          42 NVSFTVWDVGGQDKI-----RPLWKHY-YENTNGIIFVVDSSD-RERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPG  114 (158)
T ss_pred             CEEEEEEECCCCCCC-----CHHHHHH-HCCCCEEEEEEECCC-HHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCC
T ss_conf             899999988997221-----4489987-276877689983798-889999999999998660557653898760547665


Q ss_pred             -C----CCHHHHHHHHHCCCHHHEE----CCCCCCC
Q ss_conf             -3----3036777888478730261----5867232
Q gi|254780711|r  255 -R----GGAALSMRTVTGKPIKAIG----TGEKIND  281 (461)
Q Consensus       255 -k----gG~als~~~~~~~PI~fig----~GE~~~d  281 (461)
T Consensus       115 ~~~~~ei~~~l~~~~~~~~~~~~~~~SAktg~gI~e  150 (158)
T cd00878         115 ALSVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDE  150 (158)
T ss_pred             CCCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHH
T ss_conf             789999999985875107998999998887929899