HHsearch alignment for GI: 254780725 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=92.28  E-value=0.75  Score=24.42  Aligned_cols=83  Identities=14%  Similarity=0.234  Sum_probs=56.9

Q ss_pred             CCCEEEECCCCC--CCHHHHHHHHHCCCCCCCCCC-CHHHHHHHHHHHHHH-HHCCCCCCCCEEEEECCCCCCCCHHHHH
Q ss_conf             288899738888--898999998620125435787-768899999999999-9819876753899956589875200599
Q gi|254780725|r  274 IFPLVILDVPHV--WNSWTQEVLTLSDKVVITTSL-DLAGLRNSKNLIDVL-KKLRPADKPPYLVLNQVKTPKKPEISIS  349 (427)
Q Consensus       274 ~yd~VIiD~p~~--~~~~~~~~L~~AD~vviV~~p-~~~slr~a~~ll~~l-~~~~~~~~~~~iVlNr~~~~~~~~i~~~  349 (427)
T Consensus        42 ~~~l~iwDt~G~~~~~~~~~~y~~~a~~~i~V~D~t~~~s~~~~~~~~~~~~~~~~~~~~piliv~NK~Dl~~~--~~~~  119 (158)
T cd00878          42 NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGA--LSVS  119 (158)
T ss_pred             CEEEEEEECCCCCCCCHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCC--CCHH
T ss_conf             89999998899722144899872768776899837988899999999999986605576538987605476657--8999


Q ss_pred             HHHHHHCCC
Q ss_conf             999984895
Q gi|254780725|r  350 DFCAPLGIT  358 (427)
Q Consensus       350 ~~~~~lg~~  358 (427)
T Consensus       120 ei~~~l~~~  128 (158)
T cd00878         120 ELIEKLGLE  128 (158)
T ss_pred             HHHHHHHHH
T ss_conf             999998587