Peptide Modifications & Specialty Peptides

In addition to our expertise in custom peptide synthesis, we have become experts in designing and producing specialty peptides such as modified peptides, labeled peptides (e.g. FRET peptides, biotinylated peptides or phosphopeptides) and cyclic peptides as well as other peptide modifications such as D amino acid peptides or synthetic peptide esters with highest quality for even complex or unusual peptide sequences. Our highly skilled and committed scientific staff ensures that the most appropriate methods and techniques are selected for every specialty peptide project.
The exceptional quality and reliability of our synthesis service has been appreciated by customers worldwide for many years.

Modified Peptides and Specialty Peptides
Our Service includes:

  • Consultation with experienced scientists & excellent service
  • Help for peptide design by our experts if needed
  • Optimized peptide synthesis methods and protocols 
  • Development or optimization of synthesis strategies for complex peptides 
  • Reliable quality control using state-of-the-art techniques
  • Competitive prices

Modified Peptides & Specialty Peptides QC
Each specialty peptide is analyzed by LC-MS, MALDI-MS or HPLC to confirm its identity and quality.
Optional peptide analyses are:

  • AAA (amino acid analysis)
  • NMR (nuclear magnetic resonance)
  • UHPLC (Ultra-HPLC)
  • Residual solvent and water determination
  • Solubility or stability testing

For further QC/QA options, e.g. for clinical applications please check our GxP Peptides & Pools page. For detailed information on specific peptide modifications and peptide labels please click on the icons below!

JPT has vast experience in designing and producing modified and specialty peptides. Peptide synthesis options include but are not limited to the following.

Biotinylated and Tagged Peptides

  • N  and C-terminal (via Lysine)
  • Reversible: Desthiobiotin
  • Epitope Tags (Flag Tag, HA Tag, Myc Tag)
  • Different linkers/spacers available (e.g. S-S) 

Click Chemistry

  • Alkyne: e.g. propargylglycine, DIBAC, BCN, etc.
  • Azide: e.g. azido-Ala, azido-homoAla, azido-Lys, 4‑azidophenylalanine, etc.

C-Terminal Modifications

  • Standard (amide, acid), ester (e.g. OMe), aldehyde, thiol (Cys side chain), biotin (Lys or Cys side chain), fluorescein (Lys side chain), pNA, Amc, hydrazide, hydroxamic acid, chloromethyl ketone (CMK)

Cyclic Peptides

  • Cys-Cys (up to 4 disulfide bonds in one peptide, site-specific or thermodynamic cyclization)
  • Cyclized peptides via amide (head-to-tail or side-chain-to-side-chain)
  • Click chemistry
  • Thioether (Cys-bromoacetate)

Fluorescent Dye Labeled Peptides

  • Labeling at many positions, e.g. N-terminal, C-terminal (via Cystein / Lysine side chain)
  • e.g. Abz, Mca, Amc, 5(6)-FAM, 5-FAM, 6‑FAM, FITC, Tamra, Cy3, Cy5, Alexa, Dylight, Atto, Bodipy, etc.

Internally Quenched / FRET Peptides

  • Guaranteed without fluorescent impurities
  • e.g. Abz/Dnp, Abz/NitroTyr, Mca/Dnp, Edans/Dabcyl, FAM/Dabcyl, Lucifer Yellow / Dabsyl etc. 

Isotope Labeled Peptides

  • 13C, 15N, 2H labeled peptides are synthesized with the help of heay labeled amino acids
  • Depending on availability of building block

Linker / Spacer / PEGylations

  • Different functionalities can be served with a variety of molecules
  • e.g. Ttds, Ahx, div. PEG linkers

Long Peptides

  • Up to approx. 70-100 Aas
  • Fragment condensation and native chemical ligation

N-Terminal Modifications

  • Acetyl, pyroglutamyl (Pyr), palmitoyl (and other fatty acids), formyl, biotin, maleimide (e.g. 6-maleimidohexanoic acid, Mca), thiol (e.g. 3-mercaptopropyl, Mpa), azide, dyes, quenchers, radioligands (e.g. Dota, Nota, Hynic)

Peptide Dimers

  • e.g. Cys-maleimide thioether, disulfide, click chemistry, amide
  • Homodimers and heterodimers

Peptide Pooling and Library Service

  • PepMixes™ (off-the-shelf and tailored pools of overlapping peptides for T cell stimulation)
  • PepTrack™ (flexible peptide libraries, e.g overlapping peptide scans)


  • Non-proteinogenic building blocks
  • Conformational stabilization
  • Peptide bond isosters
  • Peptide optimization service

Protein Conjugates /Immunogenic Peptides

  • Conjugation to KLH, BSA, OVA, HSA
  • Conjugation via Cystein, C-terminal, N-terminal (site-directed)
  • MAPs (multiple antigenic peptides)
  • Palmitoylation, Pam3Cys labeling, etc.

(PTMs) Post-translational Modifications

  • Arginine modifications, e.g. methyl (sym/asym), citrulline
  • Lysine modifications, e.g. mono/di/tri methyl, acetyl, propanoyl, butanoyl, malonyl, succinyl, GG(ubiquitinyl)
  • Phosphorylation
  • Phosphate analogs
  • Glycosylations
  • Sulfation
  • Cystein and Methionine modifications (e.g. carbamidoylation, oxidation)
  • e.g. Histone peptides

Unnatural / Unusual Amino Acids

  • Virtually any commercially available amino acid and customized amino acids can be incorporated in our custom peptides
  • e.g. D-amino acids, homo amino acids, N-methyl amino acids, alpha-methyl amino acids, beta (homo) amino acids, gamma amino acids, helix/turn stabilizing motifs, backbone modifications (e.g. peptoids)

Testimonials for specialty peptide synthesis

"Our research relies heavily on developing robust high-throughput screens with fluorescent peptides. We have found that JPT's are the best on the market because the signal-to-noise ratio is very high, providing the sensitivity we need for the screens. Their peptides always perform well. In addition, the knowledge, wonderful customer support, and fast turnaround time provided by JPT have been invaluable in helping us develop the best peptides for our assays."

Prof. Carla Koehler, UCLA, Los Angeles, CA

Read more testimonials

Selected References for specialty peptide synthesis

"Selection and Characterization of Tau Binding ᴅ-Enantiomeric Peptides with Potential for Therapy of Alzheimer Disease"
Dammers et al., PLoS One - PMID: 28006031
"Identification of Peptide Mimics of a Glycan Epitope on the Surface of Parasitic Nematode Larvae"
Umair et al., PloS One (2016) - PMID: 27579674
"Effect of Cytokines on Siglec-1 and HIV-1 Entry in Monocyte–Derived Macrophages: the Importance of HIV-1 Envelope V1V2 Region"
Jobe et al., J Leukoc Biol (2016) - PMID:  26667473
"PLGA Nanoparticles Modified with a TNFα Mimicking Peptide, Soluble Leishmania Antigens and MPLA Induce T Cell Priming In Vitro via Dendritic Cell Functional Differentiation"
Margaroni et al., European Journal of Pharmaceutics and Biopharmace (2016) - PMID: 27235727
"Fusing Simulation and Experiment: The Effect of Mutations on the Structure and Activity of the Influenza Fusion Peptide"
Lousa et al., Sci Rep.  (2016) - PMID: 27302370
"Optimization of the All-D Peptide D3 for Aβ Oligomer Elimination"

Klein et al., PLoS One (2016) - PMID: 27105346
"Heptad-Specific Phosphorylation of RNA Polymerase II CTD"

Schüller et al., Molecular Cell (2016) - PMID: 26799765
"Distinct Genital Tract HIV-specific Antibody Profiles Associated with Tenofovir Gel"
Archary et al., Mucosal Immunol. (2016) - PMID: 26813340
"η-Secretase Processing of APP Inhibits Neuronal Activity in the Hippocampus"
Willem et al., Nature (2015) - PMID: 26322584
"Effect of cytokines on Siglec-1 and HIV-1 Entry in Monocyte–derived Macrophages: the Importance of HIV-1 Envelope V1V2 Region"
Jobe et al., J Leukoc Biol. (2015) - PMID: 26667473
"Characterization of RA839, a Non-covalent Small-molecule Binder to Keap1 and Selective Activator of Nrf2 Signalling"
Winkel et al., J Biol Chem. (2015) - PMID: 26459563
"Effects of Polymorphic Variation on the Mechanism of Endoplasmic Reticulum Aminopeptidase 1"
Stamogiannos et al., Molecular Immunology (2015) - PMID: 26224046
"IgG Antibody Responses to Recombinant gp120 proteins, gp70V1/V2 Scaffolds and a CyclicV2 Peptide in Thai Phase I/II Vaccine Trials using Different Vaccine Regimens"
Karasavvas et al., AIDS Res Hum Retroviruses. (2015) - PMID: 26234467
"Tolerability, Safety and Pharmacokinetics of the Novel Cathepsin A Inhibitor SAR164653 in Healthy Subjects"
Tillner et al., Clinical Pharmacology in Drug Development (2015) - PMID: n.a.
"Human Adenosine A2A Receptor Binds Calmodulin with High Affinity in a Calcium-Dependent Manner"
Piirainen et al., Biophys J. (2015) - PMID: 25692595

Read More References with Specialty Peptide Synthesis

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Quality Assurance

All production is performed according to ISO 9001:2015 standards

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