HHsearch alignment for GI: 254780150 and conserved domain: cd04171

>cd04171 SelB SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo
Probab=100.00  E-value=4.6e-42  Score=279.87  Aligned_cols=161  Identities=42%  Similarity=0.605  Sum_probs=141.1

Q ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCCEEEEEEEEEEC-CCEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             9999904689887899999987644420013126868698629206378999821-990899984787302467798774
Q gi|254780150|r   14 GLSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITIATAHVSYET-DKRFYSHIDCPGHADYVKNMITGA   92 (392)
Q Consensus        14 ni~~iGhvd~GKSTL~~~L~~~~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~-~~~~i~iiD~PGH~~f~~~mi~g~   92 (392)
T Consensus         2 vVaivG~~n~GKSTL~n~L~g~---------~~d~~~~e~~~giTi~~~~~~~~~~~~~~i~~iDtPGh~~~~~~~~~~~   72 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGI---------ETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGHEKFIKNMLAGA   72 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC---------CCCCCHHHHCCCEEEEEEEEEEECCCCCEEEEEECCCHHHHHHHHHHHH
T ss_conf             9999926887299999998496---------4663333334863798546878648998999994878799999999987


Q ss_pred             HCCCCEEEEECCCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCCCCCHHHHHHCCCCCCEEEEEEEEEEEEECCCCEEEE
Q ss_conf             00233145201234433210677888863187602331002333561222110123210011101453221023311467
Q gi|254780150|r   93 TQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKYSDDTPIIRGSALC  172 (392)
Q Consensus        93 ~~~D~ailvVda~~G~~~QT~eh~~l~~~lgi~~iIv~iNKmD~v~~~~~~~~i~~~i~~~l~~~~~~~~~pii~~sa~~  172 (392)
T Consensus        73 ~~aD~~llVvda~~g~~~q~~e~~~~~~~~~i~~~ivvlNK~D~v~~~~-~~~~~~~i~~~l~~~~~-~~~pii~iSA~t  150 (164)
T cd04171          73 GGIDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADLVDEDW-LELVEEEIRELLAGTFL-ADAPIFPVSAVT  150 (164)
T ss_pred             HHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHH-HHHHHHHHHHHHHHCCC-CCCEEEEEECCC
T ss_conf             4267258998617788888999999998738872787346342579789-99999999999974399-998299946989


Q ss_pred             EEECCCCCCCCCCCCCHHHHHHC
Q ss_conf             64114445652123320344310
Q gi|254780150|r  173 ALQGTNKELGEDSIHALMKAVDT  195 (392)
Q Consensus       173 g~~~~n~~~~~~~~~~Ll~~i~~  195 (392)
T Consensus       151 G~----------Gi~eL~~~I~e  163 (164)
T cd04171         151 GE----------GIEELKEYLDE  163 (164)
T ss_pred             CC----------CHHHHHHHHHH
T ss_conf             82----------99999999984