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