Peptide Nucleic Acids (PNA): Custom PNA Oligo Synthesis

Peptide Nucleic Acids (PNA): Custom PNA Oligo Synthesis

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Peptide Nucleic Acids (PNAs) are synthetic singlestranded DNA, or RNA mimics that consist of nucleobases attached to a polyamide backbone. The DNA-like PNAs' sugar-phosphodiester moiety is replaced with an uncharged N-(2-aminoethyl) glycine and the nucleobases are attached via a methyl carbonyl linker. The PNAs can sequence-specifically recognize duplex DNA and have remarkable resistance to DNases and proteinases. PNA provides a powerful tool in research and clinical applications as antisense agents in developing gene-specific therapeutics for various diseases including cancer as novel antibiotics and antivirals. PNAs have been widely used in molecular diagnostics and therapeutics from regulation target gene expression, gene silencing, antisense, antigene agents, molecular probes, biosensors, 8-17 DNAzyme and 10-23 DNAzyme, to fluorescent in-situ hybridization probes (FISH) and single nucleotide polymorphisms (SNPs) detection.

LifeTein provides custom PNA oligos, unlabeled or labeled by fluorescent dyes or other modifications. The PNA oligos can perform as Peptide Drug Conjugation for additional functionality. PNA oligomers can be labeled at 5' and/or 3' end. These labels are available upon request: fluorophores including FAM, FITC, Alexa Fluor dyes, Atto dyes, Cyanine dyes (cy3, cy5, cy7), QSY9, Pyrene, Dylight, quenchers (BHQ, Dabcyl), Acridine, Butyric acid, Alkyne (DBCO or Pentynoic acid), Azide, Biotin, photocleavable biotin, Maleimide, Myristol, Palmitic acid, et al. Contact us if your modification is not on the list.

Alexa 488 dye

490

525

699.7

FITC or FAM

495

519

389

pH sensitive

Cyanine Cy2

492

510

Cyanine Cy3

550

570

Alexa 555 dye

555

580

534.5

Rhodamine B

590

Abberior Star635

635

655

911

STED and Confocal Imaging

Cyanine Cy5

650

670

Silicon-Rhodamine (SiR)

652

674

472.61

Multicolour Live Cell Imaging

PNA FISH Probes

TelC telomere probe

CCCTAACCCTAACCCTAA; Reverse Complementary Sequence (5' to 3'): TTAGGGTTAGGGTTAGGG

TelG telomere probe

TTAGGGTTAGGGTTAGGG; Reverse Complementary Sequence (5' to 3'): CCCTAACCCTAACCCTAA

Pan-centromere CENPB probe

ATTCGTTGGAAACGGGA; Reverse Complementary Sequence (5' to 3'): TCCCGTTTCCAACGAAT

Human only pan-centromere CENT probe

AAACTAGACAGAAGCATT; Reverse Complementary Sequence (5' to 3'): AATGCTTCTGTCTAGTTT

Peptide-Conjugated Antisense PNA for Targeted Gene Silencing

(RXR)4XB-{O}-{gccatttgac}

$950, In Stock

PNA Applications

Microarrays and biosensors: PNA microarray combined with PCR could detect genetically modified organisms.

PCR clamping and artificial restriction enzyme: PNA clamp complementary to wild type sequence hybridizes specifically with wild type and blocks its amplification while allowing amplification of mutant sequence of the imperfect match.

Imaging probes and FISH of Fluorescent-PNA: The fluorescent dye-conjugated PNA can bind to DNA or RNA quickly, even under low salt.

Antisense and antigene drugs of Alkyne/azide-PNA: PNA can bind to a complementary sequence of mRNA and change its function. PNA can break up DNA duplex and form PNA/DNA triplex or double duplexes without denaturing the DNA duplex.

miRNA inhibitors of PNA-CPP: PNA binds complementary RNA more strongly than DNA or RNA does. PNA miRNA inhibitors can be conjugated to cell penetrating peptide without the need for transfection reagents for cell entry.

Double strand DNA invasion and capture Biotinylated-PNA: Because of its uncharged polyamide backbone, PNA can hybridize to negatively charged DNA or RNA without electrostatic repulsion.

Case Study: Confidential PNA–Peptide Conjugate Featuring Pseudoisocytosine and Click-Ready Handle

To demonstrate the capabilities of our custom PNA–peptide synthesis service, we present a representative structure that illustrates the complexity and flexibility of our platform. Due to client confidentiality, the full sequence cannot be disclosed, but the following anonymized format captures its essential features:

H‑PKKKRKVKK‑{TxJTxxJJ}‑linker‑{CxxxTCxxxT}‑x‑K(N₃)‑NH₂

Cell-Penetrating Peptide (CPP): The N-terminal peptide sequence PKKKRKVKK is derived from classical nuclear localization signals (NLS) and cell-penetrating motifs to promote efficient intracellular delivery of the PNA cargo.

PNA Segments with Monomer J:

{TxJTxxJJ} and {CxxxTCxxxT} represent two PNA domains, with the incorporation of pseudoisocytosine (J) enhancing triplex stability under physiological pH.

This design is particularly suited for sequence-specific DNA/RNA targeting, even in mismatch-rich or purine-rich regions.

Flexible Linker (e.g., eg1): A short PEG-like spacer connects the two PNA domains to allow conformational flexibility and minimize steric hindrance during hybridization.

Click Chemistry Handle: A C-terminal Lys(N₃) provides an azido group for site-specific bio-orthogonal conjugation (e.g., to fluorophores, biotin, or nanocarriers via CuAAC or SPAAC chemistry).

This structure highlights our ability to:

Synthesize challenging monomers such as J (pseudoisocytosine)

Incorporate complex PNA–peptide hybrids

Deliver products suitable for gene regulation, antisense studies, or targeted delivery platforms

CPP-PNA Examples

CPP

Sequence

Pen

RQIKIWFQNRRMKWKK-PNA

Tat

GRKKRRQRRRPPQ-PNA

47Tat57

GGGGYGRKKRRQRRR-PNA

Cationic

KKKK-PNA

Lys

K-PNA-KKK

Arg

RRRRRRRR-PNA

H region

AAVALLPAVLLALLA-PNA

PTD-4

YARAAARQARA-PNA

Tp-10

AGYLLGKINLKALAALAKKIL-PNA

SSBP(I)

PKKKRKV-PNA

C-myc tag

EQKLISEEDLNA-PNA

Tat-modified

RRRQRRKKR-PNA

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