HHsearch alignment for GI: 254780711 and conserved domain: cd01886

>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=97.66  E-value=0.00039  Score=51.78  Aligned_cols=214  Identities=19%  Similarity=0.166  Sum_probs=104.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEC-CCCC-CCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             9962344333468899999999861489507820-5422-1004779999851034742223321036899999999997
Q gi|254780711|r  103 IMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMAS-LDVH-RPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSAR  180 (461)
Q Consensus       103 IllvGl~GsGKTTT~aKLA~~~~~~~~~kV~lv~-~Dt~-R~aA~eQL~~~a~~~~v~~~~~~~~~dp~~i~~~a~~~a~  180 (461)
T Consensus         2 iai~gH~gaGKTtL~EalL~~ag~-i~-r~G~v~~g~tv~D~~~eE~~R------~isi~~~-------------~~~~~   60 (270)
T cd01886           2 IGIIAHIDAGKTTTTERILYYTGR-IH-KIGEVHGGGATMDFMEQERER------GITIQSA-------------ATTCF   60 (270)
T ss_pred             EEEEECCCCCHHHHHHHHHHHCCC-CC-CCCEECCCCCCCCCCHHHHHC------CCEEECC-------------EEEEE
T ss_conf             899968999988999999986687-35-581553897556684889876------8707336-------------68999


Q ss_pred             HCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHCCHHHHHHHHHHH--HHCCC-CCEEEEECCC-CCCC
Q ss_conf             415886998334422211246899999985138511000310111225688889887--63584-4077641157-6633
Q gi|254780711|r  181 DGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFD--KIVDL-TGIILTRMDG-DGRG  256 (461)
Q Consensus       181 ~~~~D~iiiDTaGR~~~d~~lm~El~~i~~~~~p~e~~lV~da~~Gq~a~~~a~~F~--~~~~i-~giIlTKlD~-~akg  256 (461)
T Consensus        61 w~~~~inliDTPG~~----DF~~e~~~aL~~~--D~AviVv~a~~GVe~~T-~~~w~~~~~~~lP~i~fINKmDre~ad~  133 (270)
T cd01886          61 WKDHRINIIDTPGHV----DFTIEVERSLRVL--DGAVAVFDAVAGVEPQT-ETVWRQADRYNVPRIAFVNKMDRTGADF  133 (270)
T ss_pred             ECCEEEEEEECCCCH----HHHHHHHHHHHHH--CEEEEEEECCCCHHHHH-HHHHHHHHHCCCCEEEEEECCCCCCCCC
T ss_conf             899899998696967----8899999998775--55999984676442636-9999889984999899998878778871


Q ss_pred             CHHH-HHHHHHCCCHHH----EECCCCC---CCCC-----CCCHHH---HHHHHHCCCCHHHHHHHHHHHHHHH---HHH
Q ss_conf             0367-778884787302----6158672---3210-----013688---9987735862788999874211267---899
Q gi|254780711|r  257 GAAL-SMRTVTGKPIKA----IGTGEKI---NDLE-----NFFPDR---IANRILGMGDVVSLVEKAARNLNEK---QAA  317 (461)
Q Consensus       257 G~al-s~~~~~~~PI~f----ig~GE~~---~dle-----~F~p~~---~~~riLGmgD~~~l~e~~~~~~d~~---~~~  317 (461)
T Consensus       134 ~~~l~~i~~~lg~~~vp~~~Pig~g~~f~GvvDll~~ka~~y~~~~~~~~~~~~i-P~~~~~~~~~~r~~L~E~vae~Dd  212 (270)
T cd01886         134 FRVVEQIREKLGANPVPLQLPIGEEDDFRGVVDLIEMKALYWDGELGEKIEETEI-PEDLLEEAEEAREELIETLAEFDD  212 (270)
T ss_pred             HHHHHHHHHHHCCCEEEEEEEECCCCCEEEEEECCCCEEEEECCCCCCCEEEECC-CHHHHHHHHHHHHHHHHHHHCCCH
T ss_conf             6689999998589738898563278974799977878799841789972378137-456689999999988988861489


Q ss_pred             HHHHHH-HCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             888653-1046379999999999851148
Q gi|254780711|r  318 LTAKKI-AKGKFDLEDLAEQFRQTQKIGG  345 (461)
Q Consensus       318 ~l~~k~-~~g~F~l~Df~~Ql~~i~kmG~  345 (461)
T Consensus       213 eLmekyle~~~l~~~el~~~l~~a~~~g~  241 (270)
T cd01886         213 ELMEKYLEGEEITEEEIKAAIRKGTIANK  241 (270)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHCCC
T ss_conf             99999757899999999999999997695