HHsearch alignment for GI: 254780648 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=99.62 E-value=4.1e-16 Score=117.51 Aligned_cols=150 Identities=19% Similarity=0.185 Sum_probs=104.0
Q ss_pred EEEEECCCCCCCEEEEEECCCCCHHHHHHHCCCEECCE------EEEECC--EEEEEECCCCCCCCCCCCCCCHHHHHHH
Q ss_conf 12442167775303541014540121211000000102------663298--6899822642124731167751234433
Q gi|254780648|r 162 IGIIGLPNAGKSTFLASVTRAKPKIADYPFTTLYPNLG------IVKEGY--KEFILADIPGIIKNAHQGAGIGDRFLKH 233 (335)
Q Consensus 162 VglVG~PNaGKSTLln~ls~ak~kIa~ypFTT~~P~lG------vv~~~~--~~~~i~D~PGlIegA~~~~glG~~FLrh 233 (335)
T Consensus 3 ivl~Gd~~vGKTsli~r~~~~~f-~~~~-----~~Tig~~~~~k~~~~~~~~~~l~iwDtaG~e----~~~~~~~---~~ 69 (161)
T cd04113 3 FIIIGSSGTGKSCLLHRFVENKF-KEDS-----QHTIGVEFGSKIIRVGGKRVKLQIWDTAGQE----RFRSVTR---SY 69 (161)
T ss_pred EEEECCCCCCHHHHHHHHHHCCC-CCCC-----CCCCCEEEEEEEEEECCEEEEEEEEECCCCH----HHHHHHH---HH
T ss_conf 99999499679999999972989-9987-----9976457899999999999999999899970----1226789---98
Q ss_pred HHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHH-HHHHHHHHHHCCCCEEEEECCCC
Q ss_conf 33357887520222211013466678998777667505988999974658998899-99999999862994899988878
Q gi|254780648|r 234 TERTHVLLHIVSALEENVQAAYQCILDELSAYNSELRKKIEIVGLSQIDTVDSDTL-ARKKNELATQCGQVPFEFSSITG 312 (335)
Q Consensus 234 Ier~~vLl~VVD~s~~d~~~~~~~I~~EL~~y~~~L~~Kp~IIVlNKiDl~~~e~~-~~~~~~l~~~~~~~vi~ISA~tg 312 (335)
T Consensus 70 ~~~a~~~ilvydit~~~Sf~~~~~w~~~i~~~~~--~~~~iilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~E~SAk~~ 147 (161)
T cd04113 70 YRGAAGALLVYDITNRTSFEALPTWLSDARALAS--PNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTG 147 (161)
T ss_pred HHCCCEEEEECCCCCHHHHHHHHHHHHHHHHHCC--CCCEEEEECCCCCCHHCCCCCHHHHHHHHHHCCCEEEEECCCCC
T ss_conf 4057778995368988999999999999998679--99649860343440003788999999999985997999741569
Q ss_pred CCHHHHHHHHHHHH
Q ss_conf 89999999999999
Q gi|254780648|r 313 HGIPQILECLHDKI 326 (335)
Q Consensus 313 ~GI~eL~~~I~e~L 326 (335)
T Consensus 148 ~nV~e~F~~la~~i 161 (161)
T cd04113 148 ENVEEAFLKCARSI 161 (161)
T ss_pred CCHHHHHHHHHHHC
T ss_conf 05899999999709