HHsearch alignment for GI: 254780264 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=98.59 E-value=6.3e-07 Score=63.22 Aligned_cols=111 Identities=23% Similarity=0.284 Sum_probs=72.2
Q ss_pred EEEECCCCCCHHHHHHHHHHHCCCCCCCCEECCCCEECCCHHHHHHHCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCC
Q ss_conf 99986878897789999999808732142201795613780889870853764079999607778713899981798755
Q gi|254780264|r 13 FGIMAHIDAGKTTTTERILYYAGKSHKIGEVHDGSATMDWMEQEQERGITITSASTTVFWPGRDGGQKKLTIIDTPGHVD 92 (701)
Q Consensus 13 v~iiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~g~~~~D~~~~E~eRgITi~ss~~sl~~~~~~~~~~~iNlIDTPGH~D 92 (701)
T Consensus 3 ivl~Gd~~vGKTsli~r~~~--~~f~~----~----~~~T------ig~~~~~k~--~~~---~~~~~~l~iwDtaG~e~ 61 (161)
T cd04113 3 FIIIGSSGTGKSCLLHRFVE--NKFKE----D----SQHT------IGVEFGSKI--IRV---GGKRVKLQIWDTAGQER 61 (161)
T ss_pred EEEECCCCCCHHHHHHHHHH--CCCCC----C----CCCC------CCEEEEEEE--EEE---CCEEEEEEEEECCCCHH
T ss_conf 99999499679999999972--98999----8----7997------645789999--999---99999999998999701
Q ss_pred CHHHHHHHHHHHCEEEEEEECCCCCCHHHHHHH-HHH---HHCCCCEEEEECCCCC
Q ss_conf 289999999860456999955888883479999-999---8739978999817676
Q gi|254780264|r 93 FTMEVERSIRVTDGAIALLDSNAGVEPQTETVW-RQA---DKYSVPRVIFCNKMDK 144 (701)
Q Consensus 93 F~~Ev~~aL~~~DgailvVDa~eGv~~qT~~vl-r~~---~~~~lp~ilvINKiDr 144 (701)
T Consensus 62 ~~~~~~~~~~~a~~~ilvydit~~~Sf~~~~~w~~~i~~~~~~~~~iilVgNK~Dl 117 (161)
T cd04113 62 FRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDL 117 (161)
T ss_pred HHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCC
T ss_conf 22678998405777899536898899999999999999867999649860343440