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