HHsearch alignment for GI: 254780787 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=96.53 E-value=0.025 Score=33.86 Aligned_cols=106 Identities=22% Similarity=0.251 Sum_probs=62.2
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHCC-CCCCE---ECCCE---------------EEEE-----------------CC
Q ss_conf 3898623685044677788642221001-23100---01214---------------9995-----------------17
Q gi|254780787|r 385 VVTIMGHVDHGKTSLLDAIRKADVAKGE-IGGIT---QHIGA---------------YQVA-----------------YQ 428 (884)
Q Consensus 385 vv~v~ghvd~GKt~lld~~r~~~~~~~e-~ggit---q~iga---------------~~~~-----------------~~ 428 (884)
T Consensus 2 Vi~lvGptGvGKTTTiaKLA~~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHAREE 81 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf 99998999998899999999999976992899974887577999999999974985992277558799999999998756
Q ss_pred CCEEEEEECCCH--HHHHHH---HH-HHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHCC--CC-EEEECCCCCCC
Q ss_conf 843888851661--578999---86-6642068059999836674023577789899709--94-15612331244
Q gi|254780787|r 429 GKNITFLDTPGH--AAFYEM---RA-RGARVTDIAVLVLAADEEIMPQAIESINHAKAAD--VS-IIVAINKIDKL 495 (884)
Q Consensus 429 ~~~~~~iDtPGh--~~f~~~---r~-rg~~~~d~~ilvv~~~~g~~~qt~e~~~~~~~~~--~p-~iva~nk~d~~ 495 (884)
T Consensus 82 ~~D~IlIDTaGr~~~d~~~~~el~~l~~~~~p~~~~LVl~a~~~-----~~~~~~~~~f~~~~~~~~~I~TKlDet 152 (173)
T cd03115 82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTG-----QDAVNQAKAFNEALGITGVILTKLDGD 152 (173)
T ss_pred CCCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCH-----HHHHHHHHHHHHCCCCCEEEEEEECCC
T ss_conf 89989997888787999999999999864489721574246550-----658999999874279978999714389