HHsearch alignment for GI: 254780484 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=99.96  E-value=2.2e-27  Score=176.52  Aligned_cols=160  Identities=23%  Similarity=0.313  Sum_probs=121.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCCC-EEEECCCCCEEEECCEEEEEEEEEEE-ECCCEEEEEECCHHHHHHHHHHHHHHHH
Q ss_conf             899974899889899999738973-79873888414521202665556785-0896499997600101112244789888
Q gi|254780484|r   31 EIAFSGRSNVGKSSLINILVNRKN-LARTSNAPGRTQHLNFFVPKDFSNLK-NNLPAMALVDMPGYGYARAPKKNVDSWG  108 (212)
Q Consensus        31 ~VaivG~~NvGKSSLiNaL~g~~~-~a~~~~~p~tt~~~~~~~~~~~~~~~-~~~~~~~~~DtpG~~~~~~~~~~~~~~~  108 (212)
T Consensus         2 vVaivG~~n~GKSTL~n~L~g~~~d~~~~e~~~giTi~~~------~~~~~~~~~~~i~~iDtPGh~~~-----------   64 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLG------FAYLDLPSGKRLGFIDVPGHEKF-----------   64 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCHHHHCCCEEEEEE------EEEEECCCCCEEEEEECCCHHHH-----------
T ss_conf             9999926887299999998496466333333486379854------68786489989999948787999-----------


Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHCCCCCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             8998777766420000011223578875454554321025753-221222211110246899999999997531368986
Q gi|254780484|r  109 GLIVRYLSERSTLRCVYLLIDCRHGVKQIDQDVFSFLDKKAVS-YQIVLTKIDKLSPTTAQETLEKTKYLIRNYPTAHPE  187 (212)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  187 (212)
T Consensus        65 --~~~~~~~~~~aD~~llVvda~~g~~~q~~e~~~~~~~~~i~~~ivvlNK~D~v~~~~~~~~~~~i~~~l~~~~~~~~p  142 (164)
T cd04171          65 --IKNMLAGAGGIDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAP  142 (164)
T ss_pred             --HHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCE
T ss_conf             --999999874267258998617788888999999998738872787346342579789999999999999743999982


Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             8999888889989999999987
Q gi|254780484|r  188 VIPTSSVKRKGIEVLRKAILET  209 (212)
Q Consensus       188 i~~vSA~~g~Gi~eL~~~I~~~  209 (212)
T Consensus       143 ii~iSA~tG~Gi~eL~~~I~el  164 (164)
T cd04171         143 IFPVSAVTGEGIEELKEYLDEL  164 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9994698982999999999849