HHsearch alignment for GI: 254780233 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=98.78 E-value=6.6e-08 Score=71.11 Aligned_cols=155 Identities=18% Similarity=0.243 Sum_probs=95.8
Q ss_pred EEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCEECCCCHHHHHCCCEEEEEEEEEE-ECCEEEEEECCCCCCCCHHHH
Q ss_conf 4999854689877889999998396142322000003885779870960646799999-899799997289875407999
Q gi|254780233|r 21 NIAIIAHVDHGKTTLVDELLKQSGVFRDNQRVSERVMDCNDLEKERGITILAKVTSIV-WNDVRINIVDTPGHADFGGEV 99 (624)
Q Consensus 21 NiaIiaHvDhGKTTL~d~LL~~sG~~~~~~~v~~~vmD~~~~EreRGITI~a~~~~~~-~~~~~iNiiDTPGH~DF~gEV 99 (624)
T Consensus 4 KivllGd~~VGKTsL~~rf~~--~~F~~~~~~--T----------ig~df~~k~i~i~dg~~v~l~IwDTaGqe~~~si~ 69 (211)
T cd04111 4 RLIVIGDSTVGKSSLLKRFTE--GRFAEVSDP--T----------VGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSIT 69 (211)
T ss_pred EEEEECCCCCCHHHHHHHHHH--CCCCCCCCC--C----------CCEEEEEEEEEECCCCEEEEEEEECCCCCCCCCCH
T ss_conf 999999999619999999981--999998687--2----------01688998999779959999999798863456442
Q ss_pred HHHHHHHCEEEEEEECCCCCCHHHHHHHHH-HHH----CCCCEEEEEECCCCCCCCHHHHH-HHHHHHHHHCCCCHHHCC
Q ss_conf 999874217899997687886478999999-997----29978999975436674025689-999988862267301104
Q gi|254780233|r 100 ERILCMVESVVVLVDAAEGPMPQTKFVVGK-ALK----IGLRPIVVVNKVDRSDARADEVI-NEVFDLFSALDATDAQLD 173 (624)
Q Consensus 100 er~l~~~DgaiLvVdA~eGv~~QT~~vl~~-A~~----~~l~~IvvINKiDr~~a~~~~v~-~ei~dlf~~l~a~de~ld 173 (624)
T Consensus 70 ~~yyr~a~g~ilVyDvt~~~SF~~l~~W~~ei~~~~~~~~~~iiLVGNK~DL~~~R--~Vs~ee~~~~A-------~~~~ 140 (211)
T cd04111 70 RSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQR--QVTREEAEKLA-------KDLG 140 (211)
T ss_pred HHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCHHHHC--CCCHHHHHHHH-------HHHC
T ss_conf 87742124468971477779999999999999997498885389887423128567--88999999999-------9839
Q ss_pred HHHHHHHHHCCEECCCCCCCCCCCCHHHHHHHHCCC
Q ss_conf 266887886591646742233486413555321024
Q gi|254780233|r 174 FPILYGSGRFGWMSDSSDGSRDQGMVPLLNLIVDHV 209 (624)
Q Consensus 174 ~Pv~~~Sa~~G~~~~~~~~~~~~gl~~Lld~Ii~~i 209 (624)
T Consensus 141 ~~f~EtSAK~g-----------~nV~e~F~~la~~i 165 (211)
T cd04111 141 MKYIETSARTG-----------DNVEEAFELLTQEI 165 (211)
T ss_pred CEEEEECCCCC-----------CCHHHHHHHHHHHH
T ss_conf 97999759998-----------19899999999999