HHsearch alignment for GI: 254780809 and conserved domain: cd04105
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=98.81 E-value=3.6e-08 Score=76.48 Aligned_cols=109 Identities=19% Similarity=0.371 Sum_probs=68.1
Q ss_pred CCEEEECCCCCCHHHHHHHHHCCHH-CCCCCC-CCCCEEECCCCCCCCCEEEEEEECCHHCCCCHHHHHHHHHHHHHHHH
Q ss_conf 3024311466318889999855200-023454-68721100012456835899950810002410356666788899850
Q gi|254780809|r 220 YKIVILGHSNAGKSSLFNALAKKDV-AIVTDI-PGTTRDVLTIDLDLEGYLVKISDTAGIRETDDIVEKEGIKRTFLEVE 297 (440)
Q Consensus 220 ~~v~i~G~pN~GKSSL~N~L~~~~~-aIVs~~-~GTTRD~i~~~~~i~g~~~~l~DTaGir~t~d~IE~~GI~ra~~~i~ 297 (440)
T Consensus 1 ptvLl~Gl~~aGKT~Lf~~L~~~~~~~T~tS~~~n~--~~~~~~~~~~~~~~~lvD~PGH~klR--------~~~~~~~~ 70 (203)
T cd04105 1 PTVLLLGPSDSGKTALFTKLTTGKYRSTVTSIEPNV--ATFILNSEGKGKKFRLVDVPGHPKLR--------DKLLETLK 70 (203)
T ss_pred CEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCC--EEEECCCCCCCCEEEEEECCCCHHHH--------HHHHHHHH
T ss_conf 959999079998999999997499888778887862--06640246687279999879968899--------99999987
Q ss_pred -HHCCEEECCCCCCHHH---------HH-------HHCCCCCCCCCCCCCCCCCCCHH
Q ss_conf -3011020135898566---------34-------31289853222233344654200
Q gi|254780809|r 298 -NADLILLLKEINSKKE---------IS-------FPKNIDFIFIGTKSDLYSTYTEE 338 (440)
Q Consensus 298 -~aDlil~v~D~~~~~~---------~~-------~~~~~~~i~V~NK~Dl~~~~~~~ 338 (440)
T Consensus 71 ~~~~gIVfvVDs~~~~~~l~~~Ae~Ly~iL~~~~~~~~~iPvLIacNKqDl~tA~~~~ 128 (203)
T cd04105 71 NSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTAKPAK 128 (203)
T ss_pred HCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCHH
T ss_conf 5498999999688751119999999999986266436899889998661434578999