Protein tags are peptide sequences genetically grafted onto a recombinant protein. Often these tags are removable by chemical agents or by enzymatic means, such as proteolysis or intein splicing. Tags are attached to proteins for various purposes.
Affinity tags are appended to proteins so that they can be purified from their crude biological source using an affinity technique. These include chitin binding protein (CBP), maltose binding protein (MBP), and glutathione-S-transferase (GST). The poly(His) tag is a widely used protein tag; it binds to metal matrices.
Solubilization tags are used, especially for recombinant proteins expressed in chaperone-deficient species such as E. coli, to assist in the proper folding in proteins and keep them from precipitating. These include thioredoxin (TRX) and poly(NANP). Some affinity tags have a dual role as a solubilization agent, such as MBP, and GST.
Chromatography tags are used to alter chromatographic properties of the protein to afford different resolution across a particular separation technique. Often, these consist of polyanionic amino acids, such as FLAG-tag.
Epitope tags are short peptide sequences which are chosen because high-affinity antibodies can be reliably produced in many different species. These are usually derived from viral genes, which explain their high immunoreactivity. Epitope tags include V5-tag, Myc-tag, and HA-tag. These tags are particularly useful for western blotting, immunofluorescence and immunoprecipitation experiments, although they also find use in antibody purification.
Fluorescence tags are used to give visual readout on a protein. GFP and its variants are the most commonly used fluorescence tags. More advanced applications of GFP include using it as a folding reporter (fluorescent if folded, colorless if not).
Protein tags find many other usages, such as specific enzymatic modification (such as biotin ligase tags) and chemical modification (FlAsH) tag. Often tags are combined to produce multifunctional modifications of the protein. However, with the addition of each tag comes the risk that the native function of the protein may be abolished or compromised by interactions with the tag. Therefore, after purification, tags are commonly removed by specific proteolysis (e.g. by TEV protease, Thrombin, Factor Xa or Enteropeptidase)
- AviTag, a peptide allowing biotinylation by the enzyme BirA and so the protein can be isolated by streptavidin (GLNDIFEAQKIEWHE)
- Calmodulin-tag, a peptide bound by the protein calmodulin (KRRWKKNFIAVSAANRFKKISSSGAL)
- polyglutamate tag, a peptide binding efficiently to anion-exchange resin such as Mono-Q (EEEEEE)
- FLAG-tag, a peptide recognized by an antibody (DYKDDDDK)
- HA-tag, a peptide recognized by an antibody (YPYDVPDYA)
- His-tag, 5-10 histidines bound by a nickel or cobalt chelate (HHHHHH)
- Myc-tag, a short peptide recognized by an antibody (EQKLISEEDL)
- S-tag (KETAAAKFERQHMDS)
- SBP-tag, a peptide which binds to streptavidin (MDEKTTGWRGGHVVEGLAGELEQLRARLEHHPQGQREP)
- Softag 1, for mammalian expression (SLAELLNAGLGGS)
- Softag 3, for prokaryotic expression (TQDPSRVG)
- Strep-tag, a peptide which binds to streptavidin or the modified streptavidin called streptactin (Strep-tag II: WSHPQFEK)
- TC tag, a tetracysteine tag that is recognized by FlAsH and ReAsH biarsenical compounds (CCPGCC)
- V5 tag, a peptide recognized by an antibody (GKPIPNPLLGLDST)
- Xpress tag (DLYDDDDK)
- Isopeptag, a peptide which binds covalently to pilin-C protein (TDKDMTITFTNKKDAE)
- SpyTag, a peptide which binds covalently to SpyCatcher protein (AHIVMVDAYKPTK) 
- BCCP (Biotin Carboxyl Carrier Protein), a protein domain biotinylated by BirA enabling recognition by streptavidin
- Glutathione-S-transferase-tag, a protein which binds to immobilized glutathione
- Green fluorescent protein-tag, a protein which is spontaneously fluorescent and can be bound by nanobodies
- Maltose binding protein-tag, a protein which binds to amylose agarose
- Designed Intrinsically Disordered tags containing disorder promoting amino acids (P,E,S,T,A,Q,G,..) Minde, David P; Els F Halff, Sander J Tans (2013-09-01). "Designing disorder: Tales of the unexpected tails". Intrinsically Disordered Proteins 1 (2): e26790.
Designing disorder: Tales of the unexpected tails Minde, David P; Els F Halff, Sander J Tans (2013-09-01). "Designing disorder: Tales of the unexpected tails". Intrinsically Disordered Proteins 1 (2): e26790.