HHsearch alignment for GI: 254780627 and conserved domain: cd03115
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=95.01 E-value=0.26 Score=29.31 Aligned_cols=98 Identities=17% Similarity=0.233 Sum_probs=56.5
Q ss_pred EEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEHHHHH-------HHHHHHHH-------C-CCHHH-HH-----HHH
Q ss_conf 8986278888579999999999863068816864698889-------99999986-------1-98899-99-----997
Q gi|254780627|r 199 LFIHASVGLGKTHLLQAIANASIKRQPNLRVVYLTAEYFM-------WRFASAIR-------D-NCALN-LK-----DSL 257 (502)
Q Consensus 199 Lfi~G~~GlGKTHLl~ai~~~~~~~~~~~~v~y~~~e~F~-------~~~~~a~~-------~-~~~~~-fr-----~~~ 257 (502)
T Consensus 3 i~lvGptGvGKTTTiaKLA~~~~~~--~~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~~~ 80 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKK--GKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHARE 80 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC--CCEEEEEECCCCCHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 9998999998899999999999976--99289997488757799999999997498599227755879999999999875
Q ss_pred HHCCHHHHHHHHHHCCCC-HHHHHHHHHHHHHHCCCEEEEEC
Q ss_conf 403102054444531750-69999999999885698799964
Q gi|254780627|r 258 RNIDLLLIDDMQFLQGKL-IQHEFCHLLNSLLDSAKQVVAAA 298 (502)
Q Consensus 258 r~~DvLliDDiqfl~gk~-tqee~f~~~n~l~~~gkqiv~ts 298 (502)
T Consensus 81 ~~~D~IlIDTaGr~~~d~~~~~el~~l~~~~~p~~~~LVl~a 122 (173)
T cd03115 81 ENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDA 122 (173)
T ss_pred CCCCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCC
T ss_conf 689989997888787999999999999864489721574246