HHsearch alignment for GI: 254780806 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=91.95  E-value=0.91  Score=23.98  Aligned_cols=112  Identities=13%  Similarity=0.119  Sum_probs=58.3

Q ss_pred             EEEECCCC--CCCCCCHHHHHHHCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEECCCHHHHHHHHH
Q ss_conf             33101333--22221011233100111112-3113788875335777655432026774310020231253100112689
Q gi|254780806|r  128 FLDCPPSF--NLLTMNAMAAADSILVPLQC-EFFALEGLSQLLETVEEVRRTVNSALDIQGIILTMFDSRNSLSQQVVSD  204 (265)
Q Consensus       128 iiD~pp~~--~~~~~~al~aad~viip~~p-~~~s~~~~~~~~~~i~~~~~~~~~~~~~~~iv~N~~~~~~~~~~~~~~~  204 (265)
T Consensus        56 IwDTaGqe~~~si~~~yyr~a~g~ilVyDvt~~~SF~~l~~---W~~ei~~~~~~~~~~iiLVGNK~DL~~--~R-----  125 (211)
T cd04111          56 LWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHD---WLEEARSHIQPHRPVFILVGHKCDLES--QR-----  125 (211)
T ss_pred             EEECCCCCCCCCCHHHHHHHCCEEEEEECCCCHHHHHHHHH---HHHHHHHHCCCCCCEEEEEEECCCHHH--HC-----
T ss_conf             99798863456442877421244689714777799999999---999999974988853898874231285--67-----


Q ss_pred             HHHHHCCCCCCCCCCCCHHHHHHHHCCCCEEEECCCC--HHHHHHHHHHHHHHHHHHHH
Q ss_conf             9988085201562678688987773798579997999--89999999999999999867
Q gi|254780806|r  205 VRKNLGGKVYNTVIPRNVRISEAPSYGKPAIIYDLKC--AGSQAYLKLASELIQQERHR  261 (265)
Q Consensus       205 l~~~~~~~v~~~~Ip~~~~i~~a~~~g~pv~~~~p~s--~~a~~~~~la~el~~~~~~~  261 (265)
T Consensus       126 ------------~Vs~ee~~~~A~~~~~~f~EtSAK~g~nV~e~F~~la~~i~~~~~~~  172 (211)
T cd04111         126 ------------QVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKRG  172 (211)
T ss_pred             ------------CCCHHHHHHHHHHHCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCC
T ss_conf             ------------88999999999983997999759998198999999999999998738