HHsearch alignment for GI: 254780263 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=99.29 E-value=8e-12 Score=92.37 Aligned_cols=139 Identities=19% Similarity=0.159 Sum_probs=84.8
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCCEEEEEEEEEECCCEEEEEEECCCCHHHHHHHHHHHHC
Q ss_conf 99990468988789999998764442001312686869862920637899982199089998478730246779877400
Q gi|254780263|r 15 LSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQ 94 (392)
Q Consensus 15 i~~iGhvd~GKSTL~~~L~~~~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~iiD~PGH~~f~~~mi~g~~~ 94 (392)
T Consensus 2 i~ilG~~~vGKTsll~~l~~~~---------~~~~------~pTig~~~~~i~~~~~~l~iwDt~G~~~~~~~~~~y~~~ 66 (158)
T cd00878 2 ILILGLDGAGKTTILYKLKLGE---------VVTT------IPTIGFNVETVEYKNVSFTVWDVGGQDKIRPLWKHYYEN 66 (158)
T ss_pred EEEECCCCCCHHHHHHHHHCCC---------CCCC------CCEECCCEEEEEECCEEEEEEECCCCCCCCHHHHHHHCC
T ss_conf 9999999998899999995399---------8874------456074089998488999999889972214489987276
Q ss_pred CCCEEEEECCCCC-CCCCHHHHHH-HHH---HCCCCCEEEEECCCCCCCCHHHHHHCCCCCCEEEEEEEE-EEEEECCCC
Q ss_conf 2331452012344-3321067788-886---318760233100233356122211012321001110145-322102331
Q gi|254780263|r 95 ADGAILVCAAEDG-PKPQTREHIL-LAR---QIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKY-SDDTPIIRG 168 (392)
Q Consensus 95 ~D~ailvVda~~G-~~~QT~eh~~-l~~---~lgi~~iIv~iNKmD~v~~~~~~~~i~~~i~~~l~~~~~-~~~~pii~~ 168 (392)
T Consensus 67 a~~~i~V~D~t~~~s~~~~~~~~~~~~~~~~~~~~p-iliv~NK~Dl~~~~~~-~----ei~~~l~~~~~~~~~~~~~~~ 140 (158)
T cd00878 67 TNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVP-LLIFANKQDLPGALSV-S----ELIEKLGLEKILGRRWHIQPC 140 (158)
T ss_pred CCEEEEEEECCCHHHHHHHHHHHHHHHHHCCCCCCE-EEEEEECCCCCCCCCH-H----HHHHHHHHHHHCCCCCEEEEE
T ss_conf 877689983798889999999999998660557653-8987605476657899-9----999998587510799899999
Q ss_pred EEEEEE
Q ss_conf 146764
Q gi|254780263|r 169 SALCAL 174 (392)
Q Consensus 169 sa~~g~ 174 (392)
T Consensus 141 SAktg~ 146 (158)
T cd00878 141 SAVTGD 146 (158)
T ss_pred ECCCCC
T ss_conf 888792