>cd01889 SelB_euk 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 euk

Probab=99.83 E-value=1.6e-19 Score=131.31 Aligned_cols=167 Identities=21% Similarity=0.271 Sum_probs=114.4 Q ss_pred EEEEECCCCCCHHHHHHHHHCCCCEEEECC-----CCCEEEECCEEEEE--------EEEEEEECCCEEEEEECCHHHHH Q ss_conf 899974899889899999738973798738-----88414521202665--------55678508964999976001011 Q gi|254780484|r 31 EIAFSGRSNVGKSSLINILVNRKNLARTSN-----APGRTQHLNFFVPK--------DFSNLKNNLPAMALVDMPGYGYA 97 (212) Q Consensus 31 ~VaivG~~NvGKSSLiNaL~g~~~~a~~~~-----~p~tt~~~~~~~~~--------~~~~~~~~~~~~~~~DtpG~~~~ 97 (212) T Consensus 2 NV~iiGHVDhGKTTL~~~L~~~~~~~~~D~~~eE~eRGITi~~g~~~~~~~~~~~~~~~~~~~~~~~~i~~IDtPGH~df 81 (192) T cd01889 2 NVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHASL 81 (192) T ss_pred EEEEEEECCCCHHHHHHHHHHHCCCHHHHCCHHHHHCCCCEEEEEEEEEECCCCCCCCCCCCCCCCEEEEEEECCCCHHH T ss_conf 89999761789999999998333501221358899779716710013785144221123234677458999877983889 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHH Q ss_conf 12244789888899877776642000001122357887545455432102575322122221111024689999999999 Q gi|254780484|r 98 RAPKKNVDSWGGLIVRYLSERSTLRCVYLLIDCRHGVKQIDQDVFSFLDKKAVSYQIVLTKIDKLSPTTAQETLEKTKYL 177 (212) Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~nK~D~~~~~~~~~~~~~~~~~ 177 (212) T Consensus 82 ~~-------------~~~~g~~~~D~ailvVda~~G~~~QT~eh~~~~~~~~~~~iv~iNK~D~v~~~~~~~~~~~i~~~ 148 (192) T cd01889 82 IR-------------TIIGGAQIIDLMLLVVDATKGIQTQTAECLVIGEILCKKLIVVLNKIDLIPEEERERKIEKMKKK 148 (192) T ss_pred HH-------------HHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHHH T ss_conf 98-------------88888743265279998788887899999999998589979999741278815779999999999 Q ss_pred ----HHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHH Q ss_conf ----753136898689998888899899999999872 Q gi|254780484|r 178 ----IRNYPTAHPEVIPTSSVKRKGIEVLRKAILETI 210 (212) Q Consensus 178 ----~~~~~~~~~~i~~vSA~~g~Gi~eL~~~I~~~l 210 (212) T Consensus 149 l~~~l~~~~~~~~~iipiSA~~G~gi~eL~~~i~~li 185 (192) T cd01889 149 LQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLI 185 (192) T ss_pred HHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHC T ss_conf 9999865389998499957898849899998887618

HHsearch alignment for GI: 254780484 and conserved domain: cd01889