HHsearch alignment for GI: 254780941 and conserved domain: cd01861

>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=99.63  E-value=3.2e-15  Score=118.35  Aligned_cols=151  Identities=18%  Similarity=0.283  Sum_probs=98.7

Q ss_pred             EEEECCCCCCHHHHHHHHHCCCEEEECCCCCCE-EEEEEEEEEECC--EEEEEEECCCCHHHCCCCCCCCCCHHHHHHHH
Q ss_conf             998338998688999998689202105888860-212789997399--48999987984010123575321002345555
Q gi|254780941|r   25 VALVGATNAGKSTLVNRFVGAKVSIVTHKVQTT-RSIVRGIVSEKE--SQIVFLDTPGIFNAKDSYHKLMIRLSWSTIKH  101 (311)
Q Consensus        25 VaivG~pN~GKSTL~N~l~g~~vsivS~k~~TT-r~~i~gi~~~~~--~qiifvDTPG~~~~~~~l~~~~~~~~~~~l~~  101 (311)
T Consensus         3 i~vvG~~~vGKTsli~r~~~~~f~~--~~~~tig~d~~~k~v~~~~~~~~l~i~D~~g~--------e~~~~~~~~~~~~   72 (161)
T cd01861           3 LVFLGDQSVGKTSIITRFMYDTFDN--QYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQ--------ERFRSLIPSYIRD   72 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHHCCCCC--CCCCCCCEEEEEEEEEECCEEEEEEEEECCCC--------HHHHHHHHHHHHH
T ss_conf             9999979978999999993199999--84897567889999999999999999979985--------3157888988665


Q ss_pred             HHHHCCCCHHHHHHHCC-HHHHHHHHHH---CCCCCEEEEEECCCHHHHHH-HHHHHHHHHCCCCCCCCCCCCCCCCCHH
Q ss_conf             32100110000100000-0012234544---28720257872110104345-7888864100123343110001387426
Q gi|254780941|r  102 ADIVCLVVDSHRELKVN-IHDLLKEIAK---RSSRLILILNKIDCVKPERL-LEQAEIANKLVFIEKTFMVSATKGHGCD  176 (311)
Q Consensus       102 aDiil~VvDa~~~~~~~-~~~il~~l~~---~~~p~IiVlNKiDlv~~~~l-~~~~~~~~~~~~~~~i~~ISAk~g~Gid  176 (311)
T Consensus        73 ~~~~ilvfd~t~~~Sf~~~~~w~~~i~~~~~~~~~ivlvGnK~Dl~~~r~v~~~e~~~~a~~~~~-~y~E~Sak~~~nV~  151 (161)
T cd01861          73 SSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNA-MFIETSAKAGHNVK  151 (161)
T ss_pred             HCEEEEEEECCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHCCCCCHHHHHHHHHHCCC-EEEEECCCCCCCHH
T ss_conf             25899998479989999999999999986578984999610211022177899999999998499-89998347780889


Q ss_pred             HHHHHHHHHC
Q ss_conf             7899999836
Q gi|254780941|r  177 DVLNYLCSTL  186 (311)
Q Consensus       177 ~L~~~L~~~l  186 (311)
T Consensus       152 e~F~~la~~l  161 (161)
T cd01861         152 ELFRKIASAL  161 (161)
T ss_pred             HHHHHHHHHC
T ss_conf             9999999709