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dPa pyrrole-2-carbaldehyde (Pa)

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picture of dPa pyrrole-2-carbaldehyde (Pa)

Modification : dPa

Catalog Reference Number
Modification Code
5 Prime
3 Prime
Molecular Weight (mw)
Extinction Coeficient (ec)
Technical Info (pdf)
Absorbance MAX
Emission MAX
Absorbance EC

Duplex Stability

Catalog NoScalePrice
26-6564-0550 nmol$169.00
26-6564-02200 nmol$169.00
26-6564-011 umol$219.70
26-6564-032 umol$329.55
26-6564-1010 umol$1,757.60
26-6564-1515 umol$2,197.00
Discounts are available for dPa!
Modification* Discount Price Structure
1 site/order List price
2 sites/order 10% discount
3 sites/order 20% discount
4 sites/order 30% discount
5-9 sites/order 50% discount
10+ sites/order 60% discount
*Exceptions apply
Related Modifications

This product has been discontinued. See related modifications for alternate modifications.

Base Pair Recognition Through Hydrophobic Interactions
The unnatural base pair between 7-(2-thienyl)-imidazo[4,5-b]pyridine (Ds) and pyrrole-2-carbaldehyde (Pa) is formed by specific hydrophobic shape complementation. The shape of the Ds-Pa pair is different from those of the natural A-T and G-C pairs, but the Ds-Pa pair works together with the natural pairs in in vitro replication and transcription. Pa also functions as a template base for incorporating another unnatural base, 2-amino-6-(2-thienyl)purine (s), into RNA. The s base also acts as a unique fluorescent base analog in DNA and RNA fragments. dDss is strongly fluorescent and is useful as a fluorescent tag for DNA detection. dDss also forms a base pair with dPa. Biotin PaTP can be site-specifically incorporated into RNA, opposite dDs at a desired position in DNA templates, by T7 transcription. Similarly, the fluorescent s base can be site-specifically incorporated into RNA opposite dPa in DNA templates.
The dNaM and d5SICS matched pair appears to be novel base pair. These unnatural C-nucleosides have pair recognition that rivals the A-T and G-C pairing in the natural genetic alphabet. In addition, they have been shown to be well-replicated by DNA polymerases under steady-state conditions, regardless of sequence. The fidelity and efficiency of dNaM and d5SICS replication approach those of natural synthesis. Both dNaM and d5SICS are also efficiently transcribed by T7 RNA polymerase in either direction.

See Glen Report for details: Unnatural Bases


1. Seo, Y.J.; Matsuda, S.; Romesberg, F.E. J. Am. Chem. Soc., 2009, 131(14), 5046-7.
2. Seo, Y.J.; Hwang, G.T.; Ordoukhanian, P.; Romesberg, F.E. J. Am. Chem. Soc., 2009, 131(9), 3246-52.
3. Seo, Y.J.; Romesberg, F.E. ChemBioChem, 2009, 10(14), 2394-2400.
4. Hwang, G.T.; Hari, Y.; Romesberg, F.E. Nucleic Acids Res., 2009, 37(14), 4757-63.
5. Hari, Y.; Hwang, G.T.; Leconte, A.M.; Joubert, N.; Hocek, M.; Romesberg, F.E. ChemBioChem, 2008, 9(17), 2796-9.
6. Hwang, G.T.; Romesberg, F.E. J. Am. Chem. Soc., 2008, 130(44), 14872-82.
7. Leconte, A.M.; Hwang, G.T.; Matsuda, S.; Capek, P.; Hari, Y.; Romesberg, F.E. J. Am. Chem. Soc., 2008, 130 (7), 2336-43.

- dPa pyrrole-2-carbaldehyde (Pa)

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