HHsearch alignment for GI: 254780226 and conserved domain: cd04125
>cd04125 RabA_like RabA-like subfamily. RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. 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=98.17 E-value=8.9e-05 Score=51.99 Aligned_cols=150 Identities=21% Similarity=0.201 Sum_probs=85.3
Q ss_pred CEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCC
Q ss_conf 24867528887888999987404898736668674488337997685558777642186502335799985122354322
Q gi|254780226|r 3 FKCGIIGLPNVGKSTLFNALTRTASAQAANYPFCTIEPNSGEVAVPDPRMHKLAEIAESKDLVPTRMSFVDIAGLVRGAS 82 (367)
Q Consensus 3 ~kiGlvG~pn~GKST~f~alT~~~~~~~~~ypFtTi~pn~g~~~v~d~~~~~l~~~~~~~~~~p~~i~~iDvaGLv~gA~ 82 (367)
T Consensus 1 ~KivvvGd~~VGKTsli~r~~~~-~-f~~~~~-~Tig~~~~~k~i----------~~~~~---~~~l~iwDtaG~e~--- 61 (188)
T cd04125 1 FKVVIIGDYGVGKSSLLKRFTED-E-FSESTK-STIGVDFKIKTV----------YIENK---IIKLQIWDTNGQER--- 61 (188)
T ss_pred CEEEEECCCCCCHHHHHHHHHHC-C-CCCCCC-CCCCEEEEEEEE----------EECCE---EEEEEEEECCCCHH---
T ss_conf 97999999997899999999519-6-899868-865403579999----------99999---99999998999710---
Q ss_pred CCCCCHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf 24663289999873037478850123454211345776732157889888876433222457777787520320467778
Q gi|254780226|r 83 KGEGLGNQFLAHIREVDAIIHVLRCFKDENIIHVEGRIDPINDIETIETELMLSDLERLERLFEKNKKYRNHKSEEIVLL 162 (367)
Q Consensus 83 ~G~GlGN~FL~~ir~aDalihVVdaf~~~~v~~~~g~~DP~~Di~~i~~EL~l~dle~lek~~~k~~k~~~~~~~~~~~~ 162 (367)
T Consensus 62 -~~~l~---~~~~~~a~~~ilvydit~~~S-------------f~~------------l~-~w~~--------------- 96 (188)
T cd04125 62 -FRSLN---NSYYRGAHGYLLVYDVTDQES-------------FEN------------LK-FWIN--------------- 96 (188)
T ss_pred -HHHHH---HHHHCCCCEEEEEECCCCHHH-------------HHH------------HH-HHHH---------------
T ss_conf -45789---998637867999803898789-------------999------------99-9999---------------
Q ss_pred HHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHCCCHHEECCCHHHHCCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 99999889988758741034431326777621023576410100100343011101013467877886436984033210
Q gi|254780226|r 163 QSIISSSLRLIEEGKPVRSLLESLDSDAIPIFKSLNLLTAKPILYICNVSEHDCKKGNIYTEAVQRLASQQNAEMIIISA 242 (367)
Q Consensus 163 ~~~l~~~~~~Le~~~~~r~~~~~~~~de~~~l~~~~llt~KP~iivaNk~e~~~~~~n~~~e~i~~l~~~~~~~~i~isa 242 (367)
T Consensus 97 ---------~i~~------~------------~----~~~~~iilvgNK~DL~~~-r~V~~~e~~~~a~~~~~~~~E~SA 144 (188)
T cd04125 97 ---------EINR------Y------------A----RENVIKVIVANKSDLVNN-KVVDSNIAKSFCDSLNIPFFETSA 144 (188)
T ss_pred ---------HHHH------H------------C----CCCCCEEEECCHHHHHHC-CCCCHHHHHHHHHHCCCEEEEECC
T ss_conf ---------9998------7------------8----986624510013447660-679999999999986998999747
Q ss_pred HHHHHH
Q ss_conf 024665
Q gi|254780226|r 243 AIEAEI 248 (367)
Q Consensus 243 ~~E~ei 248 (367)
T Consensus 145 ktg~nV 150 (188)
T cd04125 145 KQSINV 150 (188)
T ss_pred CCCCCH
T ss_conf 889098