HHsearch alignment for GI: 254780787 and conserved domain: cd04111
>cd04111 Rab39 Rab39 subfamily. Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. 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.
Probab=98.91 E-value=6.3e-09 Score=79.00 Aligned_cols=146 Identities=17% Similarity=0.249 Sum_probs=96.0
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEECCCEE----EEECC---CCEEEEEECCCHHHHHHHHHHHHHCCCCEE
Q ss_conf 89862368504467778864222100123100012149----99517---843888851661578999866642068059
Q gi|254780787|r 386 VTIMGHVDHGKTSLLDAIRKADVAKGEIGGITQHIGAY----QVAYQ---GKNITFLDTPGHAAFYEMRARGARVTDIAV 458 (884)
Q Consensus 386 v~v~ghvd~GKt~lld~~r~~~~~~~e~ggitq~iga~----~~~~~---~~~~~~iDtPGh~~f~~~r~rg~~~~d~~i 458 (884)
T Consensus 5 ivllGd~~VGKTsL~~rf~~~~F~~~~----~~Tig~df~~k~i~i~dg~~v~l~IwDTaGqe~~~si~~~yyr~a~g~i 80 (211)
T cd04111 5 LIVIGDSTVGKSSLLKRFTEGRFAEVS----DPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVL 80 (211)
T ss_pred EEEECCCCCCHHHHHHHHHHCCCCCCC----CCCCCEEEEEEEEEECCCCEEEEEEEECCCCCCCCCCHHHHHHHCCEEE
T ss_conf 999999996199999999819999986----8720168899899977995999999979886345644287742124468
Q ss_pred EEEECCCCCCHHHHHHH-HHHHH----CCCCEEEECCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEEEEECCCCCC
Q ss_conf 99983667402357778-98997----09941561233124433200022100001320001234740363110024774
Q gi|254780787|r 459 LVLAADEEIMPQAIESI-NHAKA----ADVSIIVAINKIDKLGADPQKVRMSLLKHDVFVESMGGDILDVEISAKNNLNL 533 (884)
Q Consensus 459 lvv~~~~g~~~qt~e~~-~~~~~----~~~p~iva~nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 533 (884)
T Consensus 81 lVyDvt~~~SF~~l~~W~~ei~~~~~~~~~~iiLVGNK~DL~~~--R~Vs~ee~~--~~A~~~~--~~f~EtSAK~g~nV 154 (211)
T cd04111 81 LVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQ--RQVTREEAE--KLAKDLG--MKYIETSARTGDNV 154 (211)
T ss_pred EEECCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCHHHH--CCCCHHHHH--HHHHHHC--CEEEEECCCCCCCH
T ss_conf 97147777999999999999999749888538988742312856--788999999--9999839--97999759998198
Q ss_pred CCCCCCHH
Q ss_conf 11221000
Q gi|254780787|r 534 DKLLDAIL 541 (884)
Q Consensus 534 ~~~~~~~~ 541 (884)
T Consensus 155 ~e~F~~la 162 (211)
T cd04111 155 EEAFELLT 162 (211)
T ss_pred HHHHHHHH
T ss_conf 99999999