HHsearch alignment for GI: 255764471 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=99.95 E-value=9.4e-28 Score=205.95 Aligned_cols=149 Identities=21% Similarity=0.231 Sum_probs=117.5
Q ss_pred EEEEECCCCCCHHHHHHHHHCCCEEE--ECCCCCCEEEEEEEEEEE-CCEEEEEEECCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 89997189887888999985885010--258985302238999998-998999996588420763689999999999999
Q gi|255764471|r 4 TIAIVGAPNVGKSTLFNRLVKKKMAV--VGNHPGITRDRLYGQAII-NGVIFNIVDTAGIADGKNCSIAKQMNDQTELAI 80 (470)
Q Consensus 4 ~iaivG~pNvGKStL~N~l~~~~~ai--v~~~~g~Trd~~~~~~~~-~~~~~~liDT~G~~~~~~~~~~~~i~~~~~~ai 80 (470)
T Consensus 2 vVaivG~~n~GKSTL~n~L~g~~~d~~~~e~~~giTi~~~~~~~~~~~~~~i~~iDtPGh~-----~~~~~----~~~~~ 72 (164)
T cd04171 2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGHE-----KFIKN----MLAGA 72 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHCCCCCCCHHHHCCCEEEEEEEEEEECCCCCEEEEEECCCHH-----HHHHH----HHHHH
T ss_conf 9999926887299999998496466333333486379854687864899899999487879-----99999----99987
Q ss_pred HHCCEEEEEECCCCCCCHHHHHHHHHHHCCCCC-CCCCHHHHCCCHHHHH------HHHHH-HHC--CCCCEEEHHHCCC
Q ss_conf 877989999759887762344555332102332-2220565223012100------12455-312--2220100111022
Q gi|255764471|r 81 NEAHLILFLIDSKAGITPYDHAITSFLRKKNIP-IIIVSNKMDTRIAQRN------FYEIY-SLD--FKEIVEISAEHDL 150 (470)
Q Consensus 81 ~~aD~il~vvD~~~g~~~~D~~i~~~lr~~~~~-~ilv~NK~D~~~~~~~------~~e~~-~lg--~~~~i~iSA~~g~ 150 (470)
T Consensus 73 ~~aD~~llVvda~~g~~~q~~e~~~~~~~~~i~~~ivvlNK~D~v~~~~~~~~~~~i~~~l~~~~~~~~pii~iSA~tG~ 152 (164)
T cd04171 73 GGIDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGE 152 (164)
T ss_pred HHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCC
T ss_conf 42672589986177888889999999987388727873463425797899999999999997439999829994698982
Q ss_pred CCHHHHHHHHH
Q ss_conf 20147999999
Q gi|255764471|r 151 GTSELHSVIFK 161 (470)
Q Consensus 151 Gi~~L~~~i~~ 161 (470)
T Consensus 153 Gi~eL~~~I~e 163 (164)
T cd04171 153 GIEELKEYLDE 163 (164)
T ss_pred CHHHHHHHHHH
T ss_conf 99999999984