AAT Bioquest

CDPI3 Azide [Minor Groove Binder Azide]

Product Image
Product Image
Gallery Image 1
Ordering information
Catalog Number
Unit Size
Add to cart
Additional ordering information
InternationalSee distributors
Bulk requestInquire
Custom sizeInquire
ShippingStandard overnight for United States, inquire for international
Request quotation
Physical properties
Molecular weight1434.66
Storage, safety and handling
H-phraseH303, H313, H333
Hazard symbolXN
Intended useResearch Use Only (RUO)
R-phraseR20, R21, R22
StorageFreeze (< -15 °C); Minimize light exposure


Molecular weight
Minor Groove Binder (MGB) molecules selectively bind to the minor groove of a DNA molecule, the shallow furrow in the DNA helix. MGB-labeled oligonucleotides form stable hybrid complexes with complementary DNA and RNA target sequences. Dihydropyrroloindole tripeptide (CDPI3), the analogs of natural product CC-1065, have been shown to arrest sequence-specific primer extension on single-stranded DNA when linked to oligonucleotides. CDPI3-containing oligonucleotides increases both the specificity and the strength of hybridization, thus enhancing the stability of DNA duplexes. The addition of MGB molecules to DNA probes allows the design of shorter hybridization probes useful for molecular diagnostics, e.g., quantitative PCR based assays. Several designs are possible, including Taqman MGB probes. Compared to other commercial MGB probes, AAT Bioquest offer this MGB building block that contains a methylpiperazine moiety (derived from Hoechst 33258, another popular MGB molecule) to further enhance its DNA affinity. We offer CDPI3 azide for labeling alkyne-modified oligos.


Common stock solution preparation

Table 1. Volume of DMSO needed to reconstitute specific mass of CDPI3 Azide [Minor Groove Binder Azide] to given concentration. Note that volume is only for preparing stock solution. Refer to sample experimental protocol for appropriate experimental/physiological buffers.

0.1 mg0.5 mg1 mg5 mg10 mg
1 mM69.703 µL348.515 µL697.029 µL3.485 mL6.97 mL
5 mM13.941 µL69.703 µL139.406 µL697.029 µL1.394 mL
10 mM6.97 µL34.851 µL69.703 µL348.515 µL697.029 µL

Molarity calculator

Enter any two values (mass, volume, concentration) to calculate the third.

Mass (Calculate)Molecular weightVolume (Calculate)Concentration (Calculate)Moles



View all 5 references: Citation Explorer
Synthesis and biological evaluation of a novel betulinic acid derivative as an inducer of apoptosis in human colon carcinoma cells (HT-29).
Authors: Chakraborty, Biswajit and Dutta, Debasmita and Mukherjee, Sanjukta and Das, Supriya and Maiti, Nakul C and Das, Padma and Chowdhury, Chinmay
Journal: European journal of medicinal chemistry (2015): 93-105
Novel metal-based pharmacologically dynamic agents of transition metal(II) complexes: designing, synthesis, structural elucidation, DNA binding and photo-induced DNA cleavage activity.
Authors: Raman, N and Jeyamurugan, R and Sakthivel, A and Mitu, L
Journal: Spectrochimica acta. Part A, Molecular and biomolecular spectroscopy (2010): 88-97
Synthesis, crystal structure, DNA binding and photo-induced DNA cleavage activity of (S-methyl-L-cysteine)copper(II) complexes of heterocyclic bases.
Authors: Patra, Ashis K and Nethaji, Munirathinam and Chakravarty, Akhil R
Journal: Journal of inorganic biochemistry (2007): 233-44
Syntheses, crystal structures, and oxidative DNA cleavage of some Cu(II) complexes of 5-amino-3-pyridin-2-yl-1,2,4-triazole.
Authors: Ferrer, Sacramento and Ballesteros, Rafael and Sambartolomé, Ana and González, Marta and Alzuet, Gloria and Borrás, Joaquín and Liu, Malva
Journal: Journal of inorganic biochemistry (2004): 1436-46
Metal-assisted light-induced DNA cleavage activity of 2-(methylthio)phenylsalicylaldimine Schiff base copper(II) complexes having planar heterocyclic bases.
Authors: Reddy, Pattubala A N and Santra, Bidyut K and Nethaji, Munirathinam and Chakravarty, Akhil R
Journal: Journal of inorganic biochemistry (2004): 377-86