HHsearch alignment for GI: 254780787 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=99.13 E-value=3.2e-10 Score=87.88 Aligned_cols=150 Identities=21% Similarity=0.292 Sum_probs=95.7
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHH-CCCC-CCEECCCEEEEECCCCEEEEEECCCHHHHHHHHHHHHHCCCCEEEEEEC
Q ss_conf 8986236850446777886422210-0123-1000121499951784388885166157899986664206805999983
Q gi|254780787|r 386 VTIMGHVDHGKTSLLDAIRKADVAK-GEIG-GITQHIGAYQVAYQGKNITFLDTPGHAAFYEMRARGARVTDIAVLVLAA 463 (884)
Q Consensus 386 v~v~ghvd~GKt~lld~~r~~~~~~-~e~g-gitq~iga~~~~~~~~~~~~iDtPGh~~f~~~r~rg~~~~d~~ilvv~~ 463 (884)
T Consensus 3 ivvvGd~~VGKTsli~r~~~~~f~~~~~~Tig~~~~~k~i~~~~~~~~l~iwDtaG~e~~~~l~~~~~~~a~~~ilvydi 82 (188)
T cd04125 3 VVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDV 82 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCEEEEEEEEEECCEEEEEEEEECCCCHHHHHHHHHHHCCCCEEEEEECC
T ss_conf 99999999789999999951968998688654035799999999999999998999710457899986378679998038
Q ss_pred CCCCCHHHHHHH-HHHHH---CCCCEEEECCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCC
Q ss_conf 667402357778-98997---09941561233124433200022100001320001234740363110024774112210
Q gi|254780787|r 464 DEEIMPQAIESI-NHAKA---ADVSIIVAINKIDKLGADPQKVRMSLLKHDVFVESMGGDILDVEISAKNNLNLDKLLDA 539 (884)
Q Consensus 464 ~~g~~~qt~e~~-~~~~~---~~~p~iva~nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 539 (884)
T Consensus 83 t~~~Sf~~l~~w~~~i~~~~~~~~~iilvgNK~DL~~~r--~V~~~e~~--~~a~~~--~~~~~E~SAktg~nV~e~F~~ 156 (188)
T cd04125 83 TDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNK--VVDSNIAK--SFCDSL--NIPFFETSAKQSINVEEAFIL 156 (188)
T ss_pred CCHHHHHHHHHHHHHHHHHCCCCCCEEEECCHHHHHHCC--CCCHHHHH--HHHHHC--CCEEEEECCCCCCCHHHHHHH
T ss_conf 987899999999999998789866245100134476606--79999999--999986--998999747889098999999
Q ss_pred HH
Q ss_conf 00
Q gi|254780787|r 540 IL 541 (884)
Q Consensus 540 ~~ 541 (884)
T Consensus 157 l~ 158 (188)
T cd04125 157 LV 158 (188)
T ss_pred HH
T ss_conf 99