HHsearch alignment for GI: 254780484 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=99.70  E-value=8.4e-17  Score=115.73  Aligned_cols=152  Identities=17%  Similarity=0.221  Sum_probs=91.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCCCEEEECCCCCEEEECCEEEEEEEEEEEECCCEEEEEECCHHHHHHHHHHHHHHHHHH
Q ss_conf             89997489988989999973897379873888414521202665556785089649999760010111224478988889
Q gi|254780484|r   31 EIAFSGRSNVGKSSLINILVNRKNLARTSNAPGRTQHLNFFVPKDFSNLKNNLPAMALVDMPGYGYARAPKKNVDSWGGL  110 (212)
Q Consensus        31 ~VaivG~~NvGKSSLiNaL~g~~~~a~~~~~p~tt~~~~~~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~  110 (212)
T Consensus         1 Ki~ilG~~~vGKTsll~~l~~~~~-~--~~~pTi--g~~------~~~i~~~~~~l~iwDt~G~~~~~~~~~--------   61 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-V--TTIPTI--GFN------VETVEYKNVSFTVWDVGGQDKIRPLWK--------   61 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHHCCCC-C--CCCCEE--CCC------EEEEEECCEEEEEEECCCCCCCCHHHH--------
T ss_conf             999999999988999999953998-8--744560--740------899984889999998899722144899--------


Q ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCC--HHHHH---HHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             9877776642000001122357887--54545---543210257532212222111102468999999999975313689
Q gi|254780484|r  111 IVRYLSERSTLRCVYLLIDCRHGVK--QIDQD---VFSFLDKKAVSYQIVLTKIDKLSPTTAQETLEKTKYLIRNYPTAH  185 (212)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~---~~~~~~~~~~~~~~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  185 (212)
T Consensus        62 --~y---~~~a~~~i~V~D~t~~~s~~~~~~~~~~~~~~~~~~~~piliv~NK~Dl~~~~~~~ei~~~l~~--~~~~~~~  134 (158)
T cd00878          62 --HY---YENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALSVSELIEKLGL--EKILGRR  134 (158)
T ss_pred             --HH---HCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCHHHHHHHHHH--HHHCCCC
T ss_conf             --87---2768776899837988899999999999986605576538987605476657899999999858--7510799


Q ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Q ss_conf             86899988888998999999998
Q gi|254780484|r  186 PEVIPTSSVKRKGIEVLRKAILE  208 (212)
Q Consensus       186 ~~i~~vSA~~g~Gi~eL~~~I~~  208 (212)
T Consensus       135 ~~~~~~SAktg~gI~e~f~~L~e  157 (158)
T cd00878         135 WHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHC
T ss_conf             89999988879298999999956