Photoreactive oligonucleotide chemistries for DNA/RNA cross-linking, structure probing, and protein interaction mapping.
UV-activated cross-linking chemistries enable covalent bonds between DNA/RNA strands or between nucleic acids and proteins. These modifications are useful for structural biology, probing nucleic acid secondary structures, mapping protein-nucleic acid interactions, photochemical assays and stabilized nucleic acid complex studies.
Cross-linkers generally fall into two practical categories: nucleic acid intercalators such as psoralen for site-specific targeting in double- and triple-stranded DNA, and halogenated bases such as 5-bromo-dC, 5-iodo-dC and 5-iodo-dU for intra-strand cross-linking, site-specific damage models or protein-directed capture.
Bio-Synthesis provides custom cross-linker oligonucleotides tailored for research, diagnostic and therapeutic development workflows with scalable synthesis, purification and analytical QC support.
Select site, strand, linker reach and duplex context.
Build psoralen, halogenated or convertible base oligos.
Use UVA exposure and controls to form covalent links.
Validate by PAGE, HPLC, MS or mapping workflows.
A cleaner chemistry guide for selecting psoralen intercalators, halogenated photoreactive bases, or convertible reactive bases based on your cross-linking goal, activation strategy and downstream analysis.
Best for interstrand cross-linking in stable duplex or triplex nucleic acid structures.
Best for UV-dependent site-specific photochemistry, damage models and protein interaction capture.
Best for specialized conjugation, covalent capture and custom nucleic acid labeling strategies.
Cross-linking base modified oligonucleotides are commonly used in structural biology, interaction mapping, photochemical capture workflows, stabilized nucleic acid systems and UV-induced probe development programs.
Photoactivatable oligos support RNA-binding protein studies, CLIP-style workflows, interaction capture and UV-dependent covalent stabilization.
Psoralen and halogenated bases help probe duplex accessibility, secondary structure and higher-order nucleic acid organization.
UV-activated cross-linking workflows support assay development, probe validation and target engagement studies.
Halogenated and convertible bases support protein–DNA and protein–RNA covalent capture strategies.
Interstrand cross-linking can stabilize nucleic acid complexes for biophysical, structural and translational studies.
Cross-linkers may be used to study repair pathways, UV-induced damage and site-specific interaction regions.
The optimal cross-linking chemistry depends on whether the goal is interstrand stabilization, protein capture, structure probing or UV-triggered photochemistry.
Cross-linking oligos should be designed around the target structure, intended covalent linkage, cross-linker reach, UV exposure window, and downstream analytical method.
Duplex, triplex, protein complex, secondary structure or capture target.
Psoralen, halogenated base, convertible base or mixed modification design.
Position cross-linker for reach, specificity, Tm and downstream readout.
Run dose and time controls to maximize specific product formation.
Analyze by denaturing PAGE, HPLC, MS or mapping workflow.
Explore connected oligo services for modified DNA/RNA, cross-linking, structure probes and analytical QC.
Include sequence, modifier type, position, scale, purification target, intended UV conditions, analytical needs and delivery format.
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