HHsearch alignment for GI: 254780150 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=98.84 E-value=9.7e-09 Score=73.25 Aligned_cols=143 Identities=19% Similarity=0.184 Sum_probs=82.3
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCCEEEEEEEEEEC--CCEEEEEEECCCCHHHHHHHHH
Q ss_conf 79999904689887899999987644420013126868698629206378999821--9908999847873024677987
Q gi|254780150|r 13 LGLSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITIATAHVSYET--DKRFYSHIDCPGHADYVKNMIT 90 (392)
Q Consensus 13 ~ni~~iGhvd~GKSTL~~~L~~~~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~--~~~~i~iiD~PGH~~f~~~mi~ 90 (392)
T Consensus 3 ~Kiv~vGd~~vGKTsli~r~~~~------------~f~~~y~~Tig~~~~~~~i~~~~~~~~l~iwDtaG~e~~~~~~~~ 70 (166)
T cd01869 3 FKLLLIGDSGVGKSCLLLRFADD------------TYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSS 70 (166)
T ss_pred EEEEEECCCCCCHHHHHHHHHCC------------CCCCCCCCCCCEEEEEEEEEECCEEEEEEEEECCCCCCCCCCHHH
T ss_conf 99999999997899999999439------------999874785440489999999999999999989998234626788
Q ss_pred HHHCCCCEEEEECCCCCC-CCCHHHHHHHH-H--HCCCCCEEEEECCCCCCCCHHHHHHCCCCCCEEEEEEEEEEEEECC
Q ss_conf 740023314520123443-32106778888-6--3187602331002333561222110123210011101453221023
Q gi|254780150|r 91 GATQADGAILVCAAEDGP-KPQTREHILLA-R--QIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKYSDDTPII 166 (392)
Q Consensus 91 g~~~~D~ailvVda~~G~-~~QT~eh~~l~-~--~lgi~~iIv~iNKmD~v~~~~~~~~i~~~i~~~l~~~~~~~~~pii 166 (392)
T Consensus 71 ~~~~a~~~ilvfdit~~~Sf~~i~~w~~~i~~~~~~~~~-~ilvgNK~DL~~~r~---v~~~~~~~~a~~~----~~~~~ 142 (166)
T cd01869 71 YYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVN-KLLVGNKCDLTDKRV---VDYSEAQEFADEL----GIPFL 142 (166)
T ss_pred HHHHCCEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCC-EEEEEEEECCCCCCC---CCHHHHHHHHHHC----CCEEE
T ss_conf 856326779971179989999999999999986787774-488613201131466---7999999999983----99699
Q ss_pred CCEEEEEEE
Q ss_conf 311467641
Q gi|254780150|r 167 RGSALCALQ 175 (392)
Q Consensus 167 ~~sa~~g~~ 175 (392)
T Consensus 143 E~SAk~g~n 151 (166)
T cd01869 143 ETSAKNATN 151 (166)
T ss_pred EECCCCCCC
T ss_conf 987687806