HHsearch alignment for GI: 254780787 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=100.00  E-value=4.1e-42  Score=306.06  Aligned_cols=230  Identities=28%  Similarity=0.365  Sum_probs=191.8

Q ss_pred             EEEEEECCCCCHHHHHHHHHHHH---HH--HCC--CCCCEECCCEEEEECCC--CEEEEEECCCHHHHHHHHHHHHHCCC
Q ss_conf             38986236850446777886422---21--001--23100012149995178--43888851661578999866642068
Q gi|254780787|r  385 VVTIMGHVDHGKTSLLDAIRKAD---VA--KGE--IGGITQHIGAYQVAYQG--KNITFLDTPGHAAFYEMRARGARVTD  455 (884)
Q Consensus       385 vv~v~ghvd~GKt~lld~~r~~~---~~--~~e--~ggitq~iga~~~~~~~--~~~~~iDtPGh~~f~~~r~rg~~~~d  455 (884)
T Consensus         2 ~~at~GHvDHGKT~L~k~LTgi~stsa~~lPeEkqKRG~tIDLGfAy~~l~~~n~~l~~iDvPGHe~fl~n~lAg~~~i~   81 (627)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIDSTSADRLPEEKQKRGMTIDLGFAYLPLPDINKRLGFIDVPGHEKFLSNALAGIGGID   81 (627)
T ss_pred             EEEEECCCCHHHHHHHHHHCCCCCHHHHCCCCCCCCCCCEEECCCEECCCCCCCCCCEEEECCCHHHHHHHHHHHHHHHH
T ss_conf             68731244504799999850643012312774102576624604200367777713347855973899999866756540


Q ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHCCCC-EEEECCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEEEEECCCCCCC
Q ss_conf             05999983667402357778989970994-15612331244332000221000013200012347403631100247741
Q gi|254780787|r  456 IAVLVLAADEEIMPQAIESINHAKAADVS-IIVAINKIDKLGADPQKVRMSLLKHDVFVESMGGDILDVEISAKNNLNLD  534 (884)
Q Consensus       456 ~~ilvv~~~~g~~~qt~e~~~~~~~~~~p-~iva~nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  534 (884)
T Consensus        82 ~alLvVda~eG~~~QT~EHL~vl~~l~~~~~ivvltK~D~~d~~~~~~~E~~~~~~l~~~~~~~n~~~~~~SA~tG~Gi~  161 (627)
T TIGR00475        82 AALLVVDADEGVMTQTKEHLAVLKLLGIPELIVVLTKADRVDEEEVKRVEEELKEILEEYEFLKNAKIFKTSAKTGQGIE  161 (627)
T ss_pred             HHEEEECCCCCCCCCHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHH
T ss_conf             10035415778853238999999970896199997346745658999999999999876432115747999134687778


Q ss_pred             CCCCCHHCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCHHHHHHCCHHHCCCCCCCC--CCCCCCEECCCCCCCCCCCC
Q ss_conf             1221000023333420003486664167778863776200000000000000000256--65554200014665322100
Q gi|254780787|r  535 KLLDAILLQAEMLDLKTSINRKAEGIVVEGKLDRGRGPVVTVLVQKGTLSKGNILVVG--DQWGKIRALFNDRGQGISKA  612 (884)
Q Consensus       535 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~v~~~~~~~~~~~~~~  612 (884)
T Consensus       162 ~Lk~~L~~L~e~~~~~r~~~~~lr~~iD~aF~vKG~GtVvtGt~f~G~VkvGD~~~~~pig~~~rvk~~~~-~~~~~~~A  240 (627)
T TIGR00475       162 ELKKELKNLLESLDIKRDKQKPLRLAIDRAFKVKGAGTVVTGTAFSGEVKVGDKLVLEPIGKEVRVKAIQA-QNQDVEKA  240 (627)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCCEEEEEEEEEEEEEEECCEEEEEECCCEEEEEEEEC-CCCCCCEE
T ss_conf             99999986577765542015666510321558703024687557841689888899810583678864020-58852210


Q ss_pred             CCC
Q ss_conf             001
Q gi|254780787|r  613 VPS  615 (884)
Q Consensus       613 ~~~  615 (884)
T Consensus       241 ~AG  243 (627)
T TIGR00475       241 VAG  243 (627)
T ss_pred             ECH
T ss_conf             020