HHsearch alignment for GI: 254780226 and conserved domain: cd01869

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. 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 Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=98.12  E-value=0.00015  Score=50.49  Aligned_cols=151  Identities=21%  Similarity=0.226  Sum_probs=87.9

Q ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCC
Q ss_conf             82486752888788899998740489873666867448833799768555877764218650233579998512235432
Q gi|254780226|r    2 GFKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGA   81 (367)
Q Consensus         2 ~~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA   81 (367)
T Consensus         2 ~~Kiv~vGd~~vGKTsli~r~~~~-~-f~~~y~-~Tig~~~~~~~i~----------~~~~---~~~l~iwDtaG~e---   62 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADD-T-YTESYI-STIGVDFKIRTIE----------LDGK---TIKLQIWDTAGQE---   62 (166)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCC-C-CCCCCC-CCCCEEEEEEEEE----------ECCE---EEEEEEEECCCCC---
T ss_conf             699999999997899999999439-9-998747-8544048999999----------9999---9999999899982---


Q ss_pred             CCCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             22466328999987303747885012345421134577673215788988887643322245777778752032046777
Q gi|254780226|r   82 SKGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVL  161 (367)
Q Consensus        82 ~~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~  161 (367)
T Consensus        63 -~~~~~~~~---~~~~a~~~ilvfdit~~~S----------f~~---------------i~-~w----------------   96 (166)
T cd01869          63 -RFRTITSS---YYRGAHGIIIVYDVTDQES----------FNN---------------VK-QW----------------   96 (166)
T ss_pred             -CCCCCHHH---HHHHCCEEEEEECCCCHHH----------HHH---------------HH-HH----------------
T ss_conf             -34626788---8563267799711799899----------999---------------99-99----------------


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             89999988998875874103443132677762102357641010010034301110101346787788643698403321
Q gi|254780226|r  162 LQSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIIS  241 (367)
Q Consensus       162 ~~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~is  241 (367)
T Consensus        97 --------~~~i~~------~------------~----~~~~~~ilvgNK~DL~~~-r~v~~~~~~~~a~~~~~~~~E~S  145 (166)
T cd01869          97 --------LQEIDR------Y------------A----SENVNKLLVGNKCDLTDK-RVVDYSEAQEFADELGIPFLETS  145 (166)
T ss_pred             --------HHHHHH------H------------C----CCCCCEEEEEEEECCCCC-CCCCHHHHHHHHHHCCCEEEEEC
T ss_conf             --------999998------6------------7----877744886132011314-66799999999998399699987


Q ss_pred             CHHHHHH
Q ss_conf             0024665
Q gi|254780226|r  242 AAIEAEI  248 (367)
Q Consensus       242 a~~E~ei  248 (367)
T Consensus       146 Ak~g~nI  152 (166)
T cd01869         146 AKNATNV  152 (166)
T ss_pred             CCCCCCH
T ss_conf             6878068