Presence of selenocysteine in proteins in E. coli is a consequence of:

1
post-translational modification of cysteine present in special structural regions of the proteins by SelB and SelC. 
2
post-translational modification of serine present in special structural regions of the proteins by SelB and SelC.
3
aminoacylation of a special tRNA (tRNAScCys) by serine tRNA synthetase with serine followed by further modification of the attached serine to selenocysteine followed by its transport to the ribosome by SelB 
4
aminoacylation of a special tRNA (tRNAScCys) by serine tRNA synthetase with selenocysteine followed by its transport to ribosome by SelB.

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