HHsearch alignment for GI: 254780263 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=98.45 E-value=3.6e-07 Score=63.54 Aligned_cols=140 Identities=19% Similarity=0.164 Sum_probs=83.1
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCCEE--EEEEEEEECC---CEEEEEEECCCCHHHHHH
Q ss_conf 79999904689887899999987644420013126868698629206--3789998219---908999847873024677
Q gi|254780263|r 13 LGLSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITI--ATAHVSYETD---KRFYSHIDCPGHADYVKN 87 (392)
Q Consensus 13 ~ni~~iGhvd~GKSTL~~~L~~~~~~~~~~~~~~D~~~~E~~rGiTi--~~~~~~~~~~---~~~i~iiD~PGH~~f~~~ 87 (392)
T Consensus 3 fKivllGd~~VGKTsL~~rf~~~------------~F~~~~--~~Tig~df~~k~i~i~dg~~v~l~IwDTaGqe~~~si 68 (211)
T cd04111 3 FRLIVIGDSTVGKSSLLKRFTEG------------RFAEVS--DPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSI 68 (211)
T ss_pred EEEEEECCCCCCHHHHHHHHHHC------------CCCCCC--CCCCCEEEEEEEEEECCCCEEEEEEEECCCCCCCCCC
T ss_conf 99999999996199999999819------------999986--8720168899899977995999999979886345644
Q ss_pred HHHHHHCCCCEEEEECCCCCCCCCHHHHHH-----HHHHCC--CCCEEEEECCCCCCCCHHHHHHCCCCCCEEEEEEEEE
Q ss_conf 987740023314520123443321067788-----886318--7602331002333561222110123210011101453
Q gi|254780263|r 88 MITGATQADGAILVCAAEDGPKPQTREHIL-----LARQIG--ISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKYS 160 (392)
Q Consensus 88 mi~g~~~~D~ailvVda~~G~~~QT~eh~~-----l~~~lg--i~~iIv~iNKmD~v~~~~~~~~i~~~i~~~l~~~~~~ 160 (392)
T Consensus 69 ~~~yyr~a~g~ilVyDvt~~---~SF~~l~~W~~ei~~~~~~~~~~iiLVGNK~DL~~~R~---Vs~ee~~~~A~~~--- 139 (211)
T cd04111 69 TRSYYRNSVGVLLVFDITNR---ESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQ---VTREEAEKLAKDL--- 139 (211)
T ss_pred HHHHHHHCCEEEEEECCCCH---HHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCHHHHCC---CCHHHHHHHHHHH---
T ss_conf 28774212446897147777---99999999999999974988853898874231285678---8999999999983---
Q ss_pred EEEECCCCEEEEEEEC
Q ss_conf 2210233114676411
Q gi|254780263|r 161 DDTPIIRGSALCALQG 176 (392)
Q Consensus 161 ~~~pii~~sa~~g~~~ 176 (392)
T Consensus 140 -~~~f~EtSAK~g~nV 154 (211)
T cd04111 140 -GMKYIETSARTGDNV 154 (211)
T ss_pred -CCEEEEECCCCCCCH
T ss_conf -997999759998198