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