HHsearch alignment for GI: 254780941 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=99.65  E-value=1e-15  Score=121.53  Aligned_cols=154  Identities=21%  Similarity=0.190  Sum_probs=99.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCE-EEEEEEEEEECC--EEEEEEECCCCHHHCCCCCCCCCCHHHHHHH
Q ss_conf             8998338998688999998689202105888860-212789997399--4899998798401012357532100234555
Q gi|254780941|r   24 CVALVGATNAGKSTLVNRFVGAKVSIVTHKVQTT-RSIVRGIVSEKE--SQIVFLDTPGIFNAKDSYHKLMIRLSWSTIK  100 (311)
Q Consensus        24 ~VaivG~pN~GKSTL~N~l~g~~vsivS~k~~TT-r~~i~gi~~~~~--~qiifvDTPG~~~~~~~l~~~~~~~~~~~l~  100 (311)
T Consensus         2 KivvvGd~~VGKTsli~r~~~~~f~~--~~~~Tig~~~~~k~i~~~~~~~~l~iwDtaG~e--------~~~~l~~~~~~   71 (188)
T cd04125           2 KVVIIGDYGVGKSSLLKRFTEDEFSE--STKSTIGVDFKIKTVYIENKIIKLQIWDTNGQE--------RFRSLNNSYYR   71 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHCCCCC--CCCCCCCEEEEEEEEEECCEEEEEEEEECCCCH--------HHHHHHHHHHC
T ss_conf             79999999978999999995196899--868865403579999999999999999899971--------04578999863


Q ss_pred             HHHHHCCCCHHHHHHHCC-HHHHHHHHH---HCCCCCEEEEEECCCHHHHHH-HHHHHHHHHCCCCCCCCCCCCCCCCCH
Q ss_conf             532100110000100000-001223454---428720257872110104345-788886410012334311000138742
Q gi|254780941|r  101 HADIVCLVVDSHRELKVN-IHDLLKEIA---KRSSRLILILNKIDCVKPERL-LEQAEIANKLVFIEKTFMVSATKGHGC  175 (311)
Q Consensus       101 ~aDiil~VvDa~~~~~~~-~~~il~~l~---~~~~p~IiVlNKiDlv~~~~l-~~~~~~~~~~~~~~~i~~ISAk~g~Gi  175 (311)
T Consensus        72 ~a~~~ilvydit~~~Sf~~l~~w~~~i~~~~~~~~~iilvgNK~DL~~~r~V~~~e~~~~a~~~~~-~~~E~SAktg~nV  150 (188)
T cd04125          72 GAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNI-PFFETSAKQSINV  150 (188)
T ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCCEEEECCHHHHHHCCCCCHHHHHHHHHHCCC-EEEEECCCCCCCH
T ss_conf             786799980389878999999999999987898662451001344766067999999999998699-8999747889098


Q ss_pred             HHHHHHHHHHCCC
Q ss_conf             6789999983662
Q gi|254780941|r  176 DDVLNYLCSTLPL  188 (311)
Q Consensus       176 d~L~~~L~~~lpe  188 (311)
T Consensus       151 ~e~F~~l~~~i~~  163 (188)
T cd04125         151 EEAFILLVKLIIK  163 (188)
T ss_pred             HHHHHHHHHHHHH
T ss_conf             9999999999999