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