Which molecules are distinctively different in Bacteria and Archaea?
One distinctive difference is in the cell wall...bacteria have walls composed of peptidoglycan, and archaea have walls composed of pseudopeptidoglycan (appropriately named - they both serve similar functions but are chemically different). Peptidoglycan's sugar component comprises linked N-acetylglucosamine and N-acetylmuramic acid molecules; pseudopeptidoglycan comprises N-acetylglucosamine and N-acetyltalosaminuronic acid. The DNA have some minor differences....some introns are present in archaea, and some species of archaea do have histones, but the overall structure (circular loop) remains the same. I recall reading that RNA polymerase in archaea is more closely related to that in eukaryotes, though.
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