HHsearch alignment for GI: 254780321 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=99.62  E-value=9.7e-15  Score=118.42  Aligned_cols=146  Identities=20%  Similarity=0.254  Sum_probs=97.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCEEECCCHHHHHHCCEEEEEEEEEEEECCCCCEEEEEEEECCCCCHHHH
Q ss_conf             99980138987788999999829805444431130586779871950523279999743788438999961787300279
Q gi|254780321|r   14 FSIVAHIDHGKSTLADRFIQHCRGLTEREMSSQVLDNMDIERERGITIKAQTVRLNYTSTDAKDYQLNLIDTPGHVDFTY   93 (606)
Q Consensus        14 ~~IiaHvDhGKTTL~d~lL~~tg~i~~~~~~~~vlD~~~~EreRGITIka~~~~~~~~~~~~~~y~iNlIDTPGH~DF~~   93 (606)
T Consensus         2 i~ilG~~~vGKTsll~~l~--~~~~~~~------------~----pTig-----~~~~~i~~~~~~l~iwDt~G~~~~~~   58 (158)
T cd00878           2 ILILGLDGAGKTTILYKLK--LGEVVTT------------I----PTIG-----FNVETVEYKNVSFTVWDVGGQDKIRP   58 (158)
T ss_pred             EEEECCCCCCHHHHHHHHH--CCCCCCC------------C----CEEC-----CCEEEEEECCEEEEEEECCCCCCCCH
T ss_conf             9999999998899999995--3998874------------4----5607-----40899984889999998899722144


Q ss_pred             HHHHHHHHCCEEEEEEECCCCCCHHHHHHH-HHHHH----CCCCEEEEECCCCCCCCCCCCHHHHHHHHHHHHH-----H
Q ss_conf             999999730268999986878865589999-99997----0996799832678875321133888775553223-----2
Q gi|254780321|r   94 EVSRSLSACEGSLLVVDATQGVEAQTLANV-YQAID----NNHEIITVLNKADLPSADPDRVKKQIEETIGIST-----E  163 (606)
Q Consensus        94 EV~r~l~a~dgaiLvVdA~~Gvq~QT~~~~-~~A~~----~~l~~I~viNKiD~~~A~~e~v~~ei~~~~g~~~-----~  163 (606)
T Consensus        59 ~~~~y~~~a~~~i~V~D~t~~~s~~~~~~~~~~~~~~~~~~~~piliv~NK~Dl~~~~~---~~ei~~~l~~~~~~~~~~  135 (158)
T cd00878          59 LWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALS---VSELIEKLGLEKILGRRW  135 (158)
T ss_pred             HHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCC---HHHHHHHHHHHHHCCCCC
T ss_conf             89987276877689983798889999999999998660557653898760547665789---999999985875107998


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             1000111002232006787763
Q gi|254780321|r  164 DALLVSAKTGEGIPLLLERIVQ  185 (606)
Q Consensus       164 ~ii~vSAktG~GV~~LLd~Iv~  185 (606)
T Consensus       136 ~~~~~SAktg~gI~e~f~~L~e  157 (158)
T cd00878         136 HIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             EEEEEECCCCCCHHHHHHHHHC
T ss_conf             9999988879298999999956