>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=99.63 E-value=2.3e-15 Score=112.97 Aligned_cols=149 Identities=23% Similarity=0.267 Sum_probs=92.8 Q ss_pred CEEEEECCCCCCCEEEEEECCCCCHHH-H------HHHCCCEE--------------CCEEEEECCEEEEEECCCCCCCC Q ss_conf 112442167775303541014540121-2------11000000--------------10266329868998226421247 Q gi|254780648|r 161 DIGIIGLPNAGKSTFLASVTRAKPKIA-D------YPFTTLYP--------------NLGIVKEGYKEFILADIPGIIKN 219 (335) Q Consensus 161 DVglVG~PNaGKSTLln~ls~ak~kIa-~------ypFTT~~P--------------~lGvv~~~~~~~~i~D~PGlIeg 219 (335) T Consensus 2 NV~iiGHVDhGKTTL~~~L~~~~~~~~~D~~~eE~eRGITi~~g~~~~~~~~~~~~~~~~~~~~~~~~i~~IDtPGH--- 78 (192) T cd01889 2 NVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGH--- 78 (192) T ss_pred EEEEEEECCCCHHHHHHHHHHHCCCHHHHCCHHHHHCCCCEEEEEEEEEECCCCCCCCCCCCCCCCEEEEEEECCCC--- T ss_conf 89999761789999999998333501221358899779716710013785144221123234677458999877983--- Q ss_pred CCCCCCCHHHHHHHHH----HHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHH-- Q ss_conf 3116775123443333----3578875202222110134666789987776675059889999746589988999999-- Q gi|254780648|r 220 AHQGAGIGDRFLKHTE----RTHVLLHIVSALEENVQAAYQCILDELSAYNSELRKKIEIVGLSQIDTVDSDTLARKK-- 293 (335) Q Consensus 220 A~~~~glG~~FLrhIe----r~~vLl~VVD~s~~d~~~~~~~I~~EL~~y~~~L~~Kp~IIVlNKiDl~~~e~~~~~~-- 293 (335) T Consensus 79 --------~df~~~~~~g~~~~D~ailvVda~~G-~~~QT~eh---~~~--~~~~~~~~iv~iNK~D~v~~~~~~~~~~~ 144 (192) T cd01889 79 --------ASLIRTIIGGAQIIDLMLLVVDATKG-IQTQTAEC---LVI--GEILCKKLIVVLNKIDLIPEEERERKIEK 144 (192) T ss_pred --------HHHHHHHHHHHHHCCCCEEEEECCCC-CCHHHHHH---HHH--HHHCCCCEEEEEECCCCCCHHHHHHHHHH T ss_conf --------88998888887432652799987888-87899999---999--99858997999974127881577999999 Q ss_pred --HHHHHH------CCCCEEEEECCCCCCHHHHHHHHHHHH Q ss_conf --999986------299489998887889999999999999 Q gi|254780648|r 294 --NELATQ------CGQVPFEFSSITGHGIPQILECLHDKI 326 (335) Q Consensus 294 --~~l~~~------~~~~vi~ISA~tg~GI~eL~~~I~e~L 326 (335) T Consensus 145 i~~~l~~~l~~~~~~~~~iipiSA~~G~gi~eL~~~i~~li 185 (192) T cd01889 145 MKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLI 185 (192) T ss_pred HHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHC T ss_conf 99999999865389998499957898849899998887618

HHsearch alignment for GI: 254780648 and conserved domain: cd01889