Product manual
Product use, preparation, operating conditions and storage.
BODIPY TMR XReactive dye
BODIPY TMR X Azide
Cat. No.QH-40-4008(Azide)
Couple to a matched alkyne: terminal alkynes use CuAAC, while strained alkynes use copper-free SPAAC.
Packs & quoteCuAAC · Cu(I)-catalyzed
N₃
Azide dyeR–C≡CH
Terminal alkyneTriazole
Covalent linkageSPAAC · Copper-free
N₃
Azide dyeR–DBCO
Strained alkyneTriazole
Covalent linkageExcitation544 nm
Emission570 nm
TargetTerminal alkynes or suitable strained alkynes such as DBCO and BCN
Preparation and storage
- Storage
- Store at -20°C, protect from light and moisture
Azide–alkyne cycloaddition
An azide dye does not directly label ordinary primary amines or thiols. Identify the target alkyne before choosing copper-catalyzed or strain-promoted cycloaddition.
Modified nucleic acids and peptides
Use a suitable CuAAC system for terminal-alkyne samples, removing free dye and catalyst components during purification.
Strained-alkyne-modified samples
Pair with DBCO or BCN for copper-free coupling after removing competing free reagents.
Filters and excitation leakage
Check filter bandwidths, dichroics and blocking against the actual excitation and emission values. Some BDP products have closely spaced peaks; peak positions alone do not establish excitation leakage or background. Check with unstained and free-dye controls.
Specifications
Product information
- Product name
- BODIPY TMR X Azide
- Cat. No.
- QH-40-4008(Azide)
- Product form
- Azide
- Target
- Terminal alkynes or suitable strained alkynes such as DBCO and BCN
- Pack sizes
- 1 mg / 5 mg / 10 mg / 25 mg / 100 mg
Preparation and properties
- Excitation wavelength
- 544 nm
- Emission wavelength
- 570 nm
- Molar extinction coefficient
- 60,000 M⁻¹ cm⁻¹
- Storage
- Store at -20°C, protect from light and moisture
Spectral information and detection
Product parameters
Use parameters for the exact catalog number when preparing reagents, setting reagent input or calculating results. Request a lot-specific CoA for test results.
Protocol
Confirm the reaction pair
Record the alkyne, handle count and modification method. Ordinary terminal alkynes do not use the same copper-free conditions as DBCO.
Catalyst compatibility
For CuAAC, assess copper, ligand and reducing-system effects on the sample and readout. For SPAAC, check strained-alkyne stability and residual free handles.
Aqueous dilution and vessel adsorption
Confirm the supported solvent and stock concentration for the catalog number before diluting into a small sample. Check precipitation, vessel staining and transfer loss, matching final solvent fraction and vessel material when comparing conditions.
Choose the route
Choose a validated system for the terminal or strained alkyne and include a no-alkyne control.
Run a small-scale reaction
Match solvent fractions and compare input and time. Control catalyst components for CuAAC; do not add copper to a copper-free reaction.
Purification and analysis
Select desalting, size-exclusion separation, dialysis or chromatography for the sample size. Remove free reagent before measuring concentration, labeling density and function. Residual free dye raises background and biases labeling-density calculations.
Confirm conjugation and function
Confirm the product by chromatography, electrophoresis, mass spectrometry or another suitable analysis rather than inferring conversion from total fluorescence.
Request product documentation
Select a document and enter your phone and email. Include the lot number for a CoA.
BODIPY TMR X AzideQH-40-4008(Azide)
Spectra and measurement conditions
Spectra, measurement conditions and detection settings for the exact catalog number.
Certificate of analysis (CoA)
Lot-specific test results. Include the lot number from the vial.
Safety data sheet (SDS)
Handling, storage and emergency response information.
Quality and lot information
No-alkyne control
An identically handled sample without an alkyne reveals adsorption and free-dye background.
Catalyst dependence
For CuAAC, include appropriate no-copper or no-ligand controls. For SPAAC, compare handle-positive and handle-negative samples under matched conditions.
Input titration
Compare a molar input series and assess signal, negative background, product recovery and function together.
Composition after purification
Check conjugate and free-dye fractions together. A clear or strongly fluorescent solution still needs suitable chromatography, electrophoresis or mass spectrometry to establish coupling; assess binding or enzyme activity separately for protein conjugates.
Technical articles
Application support
Include your sample, formulation and detection method when requesting application guidance.
References
BODIPY dyes and their derivatives: syntheses and spectroscopic properties
Loudet A, Burgess K. · Chemical Reviews · 107(11):4891–4932 · 2007
Reviews BODIPY synthesis, derivatization and spectroscopic properties as background for distinguishing members of the dye family.
DOI: 10.1021/cr078381n
Copper-Catalyzed Azide–Alkyne Click Chemistry for Bioconjugation
Presolski SI, Hong VP, Finn MG. · Current Protocols in Chemical Biology · 3(4):153–162 · 2011
Describes CuAAC catalyst systems and reaction assessment for terminal-alkyne substrates.
A Strain-Promoted [3 + 2] Azide–Alkyne Cycloaddition for Covalent Modification of Biomolecules in Living Systems
Agard NJ, Prescher JA, Bertozzi CR. · Journal of the American Chemical Society · 126(46):15046–15047 · 2004
Introduces ring-strain-driven azide–alkyne coupling without copper, a foundational study in SPAAC bioconjugation.
DOI: 10.1021/ja044996f
Frequently asked questions
Can an azide directly label an antibody?
The antibody needs a suitable alkyne handle. Native amines and thiols do not substitute for a click handle.
Is copper always required?
Terminal alkynes normally use CuAAC; strained alkynes such as DBCO and BCN can use SPAAC. The paired handle determines the route.
Does high fluorescence mean complete reaction?
Total fluorescence includes free dye and adsorption. Purify and characterize the product before evaluating conversion.
Are BDP, X forms and WGA conjugates interchangeable?
Distinguish structure and purpose. X belongs to the specific product’s linker structure; WGA is an already labeled lectin. Use the exact catalog number’s preparation and workflow rather than inferring membrane permeability or equal solubility from the family name.