HHsearch alignment for GI: 254780321 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=99.32  E-value=9.2e-11  Score=91.73  Aligned_cols=156  Identities=21%  Similarity=0.270  Sum_probs=101.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCEEECCCHHHHHHCCEEEEEEEEEEEECCCCCEEEEEEEECCCCCHHH
Q ss_conf             79998013898778899999982980544443113058677987195052327999974378843899996178730027
Q gi|254780321|r   13 NFSIVAHIDHGKSTLADRFIQHCRGLTEREMSSQVLDNMDIERERGITIKAQTVRLNYTSTDAKDYQLNLIDTPGHVDFT   92 (606)
Q Consensus        13 N~~IiaHvDhGKTTL~d~lL~~tg~i~~~~~~~~vlD~~~~EreRGITIka~~~~~~~~~~~~~~y~iNlIDTPGH~DF~   92 (606)
T Consensus         2 Ki~vvG~~~vGKTsli~r~~--~~~f~~~~-----------~~tig~d~~~k~v~-----~~~~~~~l~i~D~~g~e~~~   63 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFM--YDTFDNQY-----------QATIGIDFLSKTMY-----LEDKTVRLQLWDTAGQERFR   63 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHH--HCCCCCCC-----------CCCCCEEEEEEEEE-----ECCEEEEEEEEECCCCHHHH
T ss_conf             79999979978999999993--19999984-----------89756788999999-----99999999999799853157


Q ss_pred             HHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999973026899998687886558999999997----0996799832678875321133888775553223210001
Q gi|254780321|r   93 YEVSRSLSACEGSLLVVDATQGVEAQTLANVYQAID----NNHEIITVLNKADLPSADPDRVKKQIEETIGISTEDALLV  168 (606)
Q Consensus        93 ~EV~r~l~a~dgaiLvVdA~~Gvq~QT~~~~~~A~~----~~l~~I~viNKiD~~~A~~e~v~~ei~~~~g~~~~~ii~v  168 (606)
T Consensus        64 ~~~~~~~~~~~~~ilvfd~t~~~Sf~~~~~w~~~i~~~~~~~~~ivlvGnK~Dl~~~r~v~-~~e~~~~a~~~~~~y~E~  142 (161)
T cd01861          64 SLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVS-TEEGEKKAKELNAMFIET  142 (161)
T ss_pred             HHHHHHHHHHCEEEEEEECCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHCCCCC-HHHHHHHHHHCCCEEEEE
T ss_conf             8889886652589999847998999999999999998657898499961021102217789-999999999849989998


Q ss_pred             HHHCCCCCCHHHHHHHHHH
Q ss_conf             1100223200678776321
Q gi|254780321|r  169 SAKTGEGIPLLLERIVQQL  187 (606)
Q Consensus       169 SAktG~GV~~LLd~Iv~~i  187 (606)
T Consensus       143 Sak~~~nV~e~F~~la~~l  161 (161)
T cd01861         143 SAKAGHNVKELFRKIASAL  161 (161)
T ss_pred             CCCCCCCHHHHHHHHHHHC
T ss_conf             3477808899999999709