HHsearch alignment for GI: 254780321 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=99.40 E-value=1.4e-11 Score=97.31 Aligned_cols=155 Identities=25% Similarity=0.290 Sum_probs=99.8
Q ss_pred EEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCEEECCCHHHHHHCCEEEEEEEEEEEECCCCCEEEEEEEECCCCCHHHH
Q ss_conf 99980138987788999999829805444431130586779871950523279999743788438999961787300279
Q gi|254780321|r 14 FSIVAHIDHGKSTLADRFIQHCRGLTEREMSSQVLDNMDIERERGITIKAQTVRLNYTSTDAKDYQLNLIDTPGHVDFTY 93 (606)
Q Consensus 14 ~~IiaHvDhGKTTL~d~lL~~tg~i~~~~~~~~vlD~~~~EreRGITIka~~~~~~~~~~~~~~y~iNlIDTPGH~DF~~ 93 (606)
T Consensus 3 ivl~Gd~~vGKTsli~r~~--~~~f~~~~-~~Ti----------g~~~~~k~~~-----~~~~~~~l~iwDtaG~e~~~~ 64 (161)
T cd04113 3 FIIIGSSGTGKSCLLHRFV--ENKFKEDS-QHTI----------GVEFGSKIIR-----VGGKRVKLQIWDTAGQERFRS 64 (161)
T ss_pred EEEECCCCCCHHHHHHHHH--HCCCCCCC-CCCC----------CEEEEEEEEE-----ECCEEEEEEEEECCCCHHHHH
T ss_conf 9999949967999999997--29899987-9976----------4578999999-----999999999998999701226
Q ss_pred HHHHHHHHCCEEEEEEECCCCCCHHHHHHHHH-HHH---CCCCEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999973026899998687886558999999-997---09967998326788753211338887755532232100011
Q gi|254780321|r 94 EVSRSLSACEGSLLVVDATQGVEAQTLANVYQ-AID---NNHEIITVLNKADLPSADPDRVKKQIEETIGISTEDALLVS 169 (606)
Q Consensus 94 EV~r~l~a~dgaiLvVdA~~Gvq~QT~~~~~~-A~~---~~l~~I~viNKiD~~~A~~e~v~~ei~~~~g~~~~~ii~vS 169 (606)
T Consensus 65 ~~~~~~~~a~~~ilvydit~~~Sf~~~~~w~~~i~~~~~~~~~iilVgNK~Dl~~~r~-V~~~e~~~~a~~~~~~~~E~S 143 (161)
T cd04113 65 VTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQRE-VTFLEASRFAQENGLLFLETS 143 (161)
T ss_pred HHHHHHHCCCEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHCCC-CCHHHHHHHHHHCCCEEEEEC
T ss_conf 7899840577789953689889999999999999986799964986034344000378-899999999998599799974
Q ss_pred HHCCCCCCHHHHHHHHHH
Q ss_conf 100223200678776321
Q gi|254780321|r 170 AKTGEGIPLLLERIVQQL 187 (606)
Q Consensus 170 AktG~GV~~LLd~Iv~~i 187 (606)
T Consensus 144 Ak~~~nV~e~F~~la~~i 161 (161)
T cd04113 144 ALTGENVEEAFLKCARSI 161 (161)
T ss_pred CCCCCCHHHHHHHHHHHC
T ss_conf 156905899999999709