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