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