HHsearch alignment for GI: 254780484 and conserved domain: cd04113
>cd04113 Rab4 Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. 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 p
Probab=99.57 E-value=8.8e-15 Score=104.12 Aligned_cols=156 Identities=14% Similarity=0.104 Sum_probs=85.0
Q ss_pred EEEEECCCCCCHHHHHHHHHCCCCEEEECCCCCEEEECCEEEEEEEEEEEECCCEEEEEECCHHHHHHHHHHHHHHHHHH
Q ss_conf 89997489988989999973897379873888414521202665556785089649999760010111224478988889
Q gi|254780484|r 31 EIAFSGRSNVGKSSLINILVNRKNLARTSNAPGRTQHLNFFVPKDFSNLKNNLPAMALVDMPGYGYARAPKKNVDSWGGL 110 (212)
Q Consensus 31 ~VaivG~~NvGKSSLiNaL~g~~~~a~~~~~p~tt~~~~~~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~ 110 (212)
T Consensus 2 Kivl~Gd~~vGKTsli~r~~~~~f~--~~~~~Tig~~----~~~k~~~~~~~~~~l~iwDtaG~e~~~~~~~-------- 67 (161)
T cd04113 2 KFIIIGSSGTGKSCLLHRFVENKFK--EDSQHTIGVE----FGSKIIRVGGKRVKLQIWDTAGQERFRSVTR-------- 67 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHHCCCC--CCCCCCCCEE----EEEEEEEECCEEEEEEEEECCCCHHHHHHHH--------
T ss_conf 8999994996799999999729899--9879976457----8999999999999999998999701226789--------
Q ss_pred HHHHHHHHHHHCCCCCCCCCCCC--CCHHHHH--HHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 98777766420000011223578--8754545--5432102575322122221111024689999999999753136898
Q gi|254780484|r 111 IVRYLSERSTLRCVYLLIDCRHG--VKQIDQD--VFSFLDKKAVSYQIVLTKIDKLSPTTAQETLEKTKYLIRNYPTAHP 186 (212)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~--~~~~~~~~~~~~~~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 (212)
T Consensus 68 --~~~---~~a~~~ilvydit~~~Sf~~~~~w~~~i~~~~~~~~~iilVgNK~Dl~~~r~V~~--~e~~~~a~~---~~~ 137 (161)
T cd04113 68 --SYY---RGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTF--LEASRFAQE---NGL 137 (161)
T ss_pred --HHH---HCCCEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHCCCCCH--HHHHHHHHH---CCC
T ss_conf --984---0577789953689889999999999999986799964986034344000378899--999999998---599
Q ss_pred CEEEEECCCCCCHHHHHHHHHHHH
Q ss_conf 689998888899899999999872
Q gi|254780484|r 187 EVIPTSSVKRKGIEVLRKAILETI 210 (212)
Q Consensus 187 ~i~~vSA~~g~Gi~eL~~~I~~~l 210 (212)
T Consensus 138 ~~~E~SAk~~~nV~e~F~~la~~i 161 (161)
T cd04113 138 LFLETSALTGENVEEAFLKCARSI 161 (161)
T ss_pred EEEEECCCCCCCHHHHHHHHHHHC
T ss_conf 799974156905899999999709