HHsearch alignment for GI: 254780382 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=96.51 E-value=0.0057 Score=38.07 Aligned_cols=129 Identities=18% Similarity=0.221 Sum_probs=55.8
Q ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCC-HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 99982798517899999999998606521478279998285-89999999998741023332210000122222222222
Q gi|254780382|r 41 VCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPT-RELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKL 119 (465)
Q Consensus 41 vi~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~lil~Pt-reLa~Qi~~~~~~~~~~~~l~~~~~~gg~~~~~~~~~l 119 (465)
T Consensus 3 i~lvGptGvGKTTTiaK-LA~~~~~----~~~kV~lit~Dt~R~gA---~eQL~~~a~~l~v~~~~~~------------ 62 (173)
T cd03115 3 ILLVGLQGVGKTTTAAK-LALYLKK----KGKKVLLVAADTYRPAA---IEQLRVLGEQVGVPVFEEG------------ 62 (173)
T ss_pred EEEECCCCCCHHHHHHH-HHHHHHH----CCCEEEEEECCCCCHHH---HHHHHHHHHHCCCEEEECC------------
T ss_conf 99989999988999999-9999997----69928999748875779---9999999997498599227------------
Q ss_pred CCHHHHHHCCCCHHHHHHHC--CCCCCCCCEEECCCCCCCCC-CCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 10112210221023333200--00001210010255100000-0010035788754310222223334321122221111
Q gi|254780382|r 120 ERGADVLICTPGRILDHFNR--GKLLMNNIEILVIDEADRML-DMGFIPYIQNITSLVPFTRQTLLFSATMTDELQKVSE 196 (465)
Q Consensus 120 ~~~~~IiV~TP~rl~~~l~~--~~~~l~~~~~lViDEah~l~-~~gf~~~i~~i~~~~~~~~q~i~~SAT~~~~v~~l~~ 196 (465)
T Consensus 63 ---------~~~~~~~~~~~~~~~~~~~~~D~IlIDTaGr~~~d~~~~~el~~l~~~~~p~~~~LVl~a~~~~~~~~~~~ 133 (173)
T cd03115 63 ---------EGKDPVSIAKRAIEHAREENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDAVNQAK 133 (173)
T ss_pred ---------CCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCHHHHHHHHH
T ss_conf ---------75587999999999987568998999788878799999999999986448972157424655065899999
Q ss_pred CC
Q ss_conf 22
Q gi|254780382|r 197 NF 198 (465)
Q Consensus 197 ~~ 198 (465)
T Consensus 134 ~f 135 (173)
T cd03115 134 AF 135 (173)
T ss_pred HH
T ss_conf 98