Beta-alanine Linkers, also named spacers, are flexible molecules or stretch of molecules that are used to link 2 molecules of interest together (e.g.: a fluorophore to a peptide or 2 peptides). For instance the presence of a spacer > 4Å (~5 atoms) is crucial between the carboxy group of the biotin and the 1st bulky amino acid of the peptide to allow the biotin to reach the avidin binding pocket. Aliphatic spacers as well as more hydrophilic ones (e.g.: PEG) exist with a length starting from 4 atoms and can exceed 200 atoms. Linkers exceeding 60 atoms in length are generally not well defined or monodisperse. They generally comprise a population of compounds having an average length.
Spacers of different lengths can be incorporated anywhere in the peptide. Spacer attachment is usually through an amide linkage but other functionalities are possible as well. A few examples from broad range of available linkers are listed below