HHsearch alignment for GI: 254780648 and conserved domain: TIGR00475
>TIGR00475 selB selenocysteine-specific translation elongation factor; InterPro: IPR004535 In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation . This family describes the elongation factor SelB, a close homologue of EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This family should not include an equivalent protein for eukaryotes. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm.
Probab=99.38 E-value=4.4e-12 Score=93.09 Aligned_cols=149 Identities=26% Similarity=0.339 Sum_probs=96.3
Q ss_pred EEEEECCCCCCCEEEEEECCCCCH-HHHHH------HCCCEECCE--EEEECC--EEEEEECCCCCCCCCCCCCCCHHHH
Q ss_conf 124421677753035410145401-21211------000000102--663298--6899822642124731167751234
Q gi|254780648|r 162 IGIIGLPNAGKSTFLASVTRAKPK-IADYP------FTTLYPNLG--IVKEGY--KEFILADIPGIIKNAHQGAGIGDRF 230 (335)
Q Consensus 162 VglVG~PNaGKSTLln~ls~ak~k-Ia~yp------FTT~~P~lG--vv~~~~--~~~~i~D~PGlIegA~~~~glG~~F 230 (335)
T Consensus 3 ~at~GHvDHGKT~L~k~LTgi~stsa~~lPeEkqKRG~tID--LGfAy~~l~~~n~~l~~iDvPG-----He------~f 69 (627)
T TIGR00475 3 IATAGHVDHGKTTLLKALTGIDSTSADRLPEEKQKRGMTID--LGFAYLPLPDINKRLGFIDVPG-----HE------KF 69 (627)
T ss_pred EEEECCCCHHHHHHHHHHCCCCCHHHHCCCCCCCCCCCEEE--CCCEECCCCCCCCCCEEEECCC-----HH------HH
T ss_conf 87312445047999998506430123127741025766246--0420036777771334785597-----38------99
Q ss_pred HHH----HHHHHHHHHHCCCCCCCH---HHHHHHHHHHHHHHHHHHCCCC-EEEEEECCCCCCHHHHHHH---HHHHHHH
Q ss_conf 433----333578875202222110---1346667899877766750598-8999974658998899999---9999986
Q gi|254780648|r 231 LKH----TERTHVLLHIVSALEENV---QAAYQCILDELSAYNSELRKKI-EIVGLSQIDTVDSDTLARK---KNELATQ 299 (335)
Q Consensus 231 Lrh----Ier~~vLl~VVD~s~~d~---~~~~~~I~~EL~~y~~~L~~Kp-~IIVlNKiDl~~~e~~~~~---~~~l~~~ 299 (335)
T Consensus 70 l~n~lAg~~~i~~alLvVda~eG~~~QT~EHL~vl---------~~l~~~~~ivvltK~D~~d~~~~~~~E~~~~~~l~~ 140 (627)
T TIGR00475 70 LSNALAGIGGIDAALLVVDADEGVMTQTKEHLAVL---------KLLGIPELIVVLTKADRVDEEEVKRVEEELKEILEE 140 (627)
T ss_pred HHHHHHHHHHHHHHEEEECCCCCCCCCHHHHHHHH---------HHHCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 99986675654010035415778853238999999---------970896199997346745658999999999999876
Q ss_pred ----CCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf ----299489998887889999999999999854523
Q gi|254780648|r 300 ----CGQVPFEFSSITGHGIPQILECLHDKIFSIRGE 332 (335)
Q Consensus 300 ----~~~~vi~ISA~tg~GI~eL~~~I~e~L~~~r~e 332 (335)
T Consensus 141 ~~~~~n~~~~~~SA~tG~Gi~~Lk~~L~~L~e~~~~~ 177 (627)
T TIGR00475 141 YEFLKNAKIFKTSAKTGQGIEELKKELKNLLESLDIK 177 (627)
T ss_pred HHHHCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 4321157479991346877789999998657776554