What is minor groove binder probe?

Applied Biosystems TaqMan MGB (minor groove binder) probes are dual-labeled probes used for real-time PCR applications using TaqMan chemistry. TaqMan MGB Probes incorporate a 5′ fluorescent reporter dye and a 3′ nonfluorescent quencher (NFQ).

What is a minor groove binder?

Minor Groove Binders or MGBs are crescent-shaped molecules that selectively bind non-covalently to the minor groove of DNA, a shallow furrow in the DNA helix. Binding to DNA with specific sequences usually takes place by a combination of directed hydrogen bonding to base pair edges.

How do MGB probes work?

MGB Probes for gene expression analysis & SNP genotyping The double-stranded DNA is denatured by raising the temperature. At this point the fluorescent dye of the probe is quenched by the MGB-Eclipse quencher. By decreasing the temperature the PCR primers and MGB probe anneal to their specific target sequence.

What is Qsy probe?

Applied Biosystems TaqMan QSY probes are dual-labeled probes used for real-time PCR. TaqMan QSY Probes are designed for optimal sensitivity and performance in multiplex qPCR experiments. All TaqMan QSY probes are HPLC-purified and verified by mass spectrometry to help ensure lot-to-lot reproducibility between batches.

What is major groove and minor groove DNA?

The major groove occurs where the backbones are far apart, the minor groove occurs where they are close together. The grooves twist around the molecule on opposite sides. Certain proteins bind to DNA to alter its structure or to regulate transcription (copying DNA to RNA) or replication (copying DNA to DNA).

How much does MGB increase TM?

The hydrophobic binding of the MGB to the DNA helix increases the Tm by 15°C–30°C, which al- lows the use of shorter probes with high specificity (10).

Which DNA groove is used most often for DNA protein binding?

major groove
The α-helix is the most frequently used secondary structure element for specific DNA recognition in the major groove. The positioning of the helix in the major groove can vary between different protein families and also among different proteins within the same family, as reviewed previously [17].

Is Tamra a quencher?

TAMRA dye is an effective quencher for fluorophores with emission maxima less than 560 nm. Dyes with longer wavelength emissions will not be effectively quenched by TAMRA. With some dye pairings, FRET quenching is supplemented by the static quenching mechanism.

What is the difference between minor and major groove?

The strand backbones are closer together on one side of the helix than on the other. The major groove occurs where the backbones are far apart, the minor groove occurs where they are close together. The grooves twist around the molecule on opposite sides.

What is minor groove binder probe? Applied Biosystems TaqMan MGB (minor groove binder) probes are dual-labeled probes used for real-time PCR applications using TaqMan chemistry. TaqMan MGB Probes incorporate a 5′ fluorescent reporter dye and a 3′ nonfluorescent quencher (NFQ). What is a minor groove binder? Minor Groove Binders or MGBs are crescent-shaped molecules that…