Polyamides with tail structures capable of binding DNA

Details Polyamides with tail structures capable of binding DNA Polyamides with tail structures capable of binding DNA

2011-05-03

2011-05-03

Staples, Mark (Department: 1637)

Chemistry: molecular biology and microbiology

Process of mutation, cell fusion, or genetic modification

C530S328000

Reexamination Certificate

active

07935530

ABSTRACT:
The present invention relates to polyamides with a tail comprising a linker and an end-group. A preferred end-group is isophthalic acid and derivatives thereof. Polyamides of the invention are capable of entering the nucleus of cells. Polyamides of the invention are capable of selectively binding DNA. The invention also relates to methods of using the polyamides in therapy and research.

REFERENCES:
patent: 5998140 (1999-12-01), Dervan
patent: 6090947 (2000-07-01), Dervan
patent: 6143901 (2000-11-01), Dervan
patent: 6303312 (2001-10-01), Dervan
patent: 6472537 (2002-10-01), Baird
patent: 6506906 (2003-01-01), Dervan
patent: 6545162 (2003-04-01), Dervan
patent: 6555692 (2003-04-01), Dervan
patent: 6559125 (2003-05-01), Dervan
patent: 6635417 (2003-10-01), Dervan
patent: 6660255 (2003-12-01), Gottesfeld
patent: 6673940 (2004-01-01), Dervan
patent: 6958240 (2005-10-01), Baird
patent: 7049061 (2006-05-01), Baird
patent: 7087378 (2006-08-01), Baird
patent: 7452730 (2008-11-01), Dervan
patent: 2003/0109448 (2003-06-01), Crowley
patent: 2005/0026174 (2005-02-01), Dervan
patent: 2006/0014163 (2006-01-01), Dervan
patent: 2006/0019972 (2006-01-01), Dervan
patent: 2006/0025429 (2006-02-01), Dervan
patent: 2006/0270727 (2006-11-01), Melander
patent: WO 97/30975 (1997-08-01), None
patent: WO 98/35702 (1998-08-01), None
patent: WO 98/37066 (1998-08-01), None
patent: WO 98/45284 (1998-10-01), None
patent: WO 98/49142 (1998-11-01), None
patent: WO 98/50058 (1998-11-01), None
patent: WO 98/37087 (1999-08-01), None
patent: WO 03/041128 (2003-05-01), None
Foister et al., Shape Selective Recognition of T.A Base Pairs by Hairpin Polyamides Containing N-Terminal 3-Methoxy (and 3-Chloro) Thiophene Residues, Bioorganic & Medicinal Chemistry 11 (2003) 4333-4340.
Anjana et al., Activation Specificity of Arsonate-Reactive T-Cell Clones, J. ExP. Med. © The Rockefeller University Press • 0022-1007/84/02/0479/16, vol. 159 Feb. 1984 479-494.
Almarsson et al., 1993, “Molecular mechanics calculations of the structures of polyamide nucleic acid DNA duplexes and triple helical hybrids,” Proc. Natl. Acad. Sci. USA 90:7518-7522.
Baird et al., 1996, “Solid Phase Synthesis of Polyamides Containing Imidazole and Pyrrole Amino Acids,” J. Am. Chem. Soc. 118:6141-6146.
Best et al., 2003, “Nuclear localization of pyrrole-imidazole polyamide-fluorescein conjugates in cell culture,” Proc. Natl. Acad. Sci. USA 100(21):12063-12068.
Burnett et al., 2006, “DNA sequence-specific polyamides alleviate transcription inhibition associated with long GAA•TTC repeats in Friedrich's ataxia,” Proc. Natl. Acad. Sci. USA 103(31):11497-11502.
Cherny et al., 1993, “DNA unwinding upon strand-displacement binding of a thymine-substituted polyamide to double-stranded DNA,” Proc. Natl. Acad. Sci. USA 90:1667-1670.
Chiang et al., 2000, “Targeting the Ets Binding Site of the HER2
eu Promoter with Pyrrole-Imidazole Polyamides,” J. Biol. Chem. 275(32):24246-24254.
Coull et al., 2002, “Targeted Derepression of the Human Immunodeficiency Virus Type 1 Long Terminal Repeat by Pyrrole-Imidazole Polyamides,” J. Virology 76(23):12349- 12354.
Dervan, 2001, “Molecular Recognition of DNA by Small Molecules,” Bioorganic & Medicinal Chem. 9:2215-2235.
Dickinson et al., 1998, “Inhibition of RNA polymerase II transcription in human cells by synthetic DNA-binding ligands,” Proc. Natl. Acad. Sci. USA 95:12890-12895.
Dickinson et al., 2004, “Arresting Cancer Proliferation by Small-Molecule Gene Regulation,” Chemistry & Biology 11: 1583-1594.
Dudouet et al., 2003, “Accessibility of Nuclear Chromatin by DNA Binding Polyamides,” Chemistry & Biology 10:859-867.
Edelson et al., 2004, “Influence of structural variation on nuclear localization of DNA-binding polyamde-fluorophore conjugates,” Nucleic Acids Res. 32(9):2802-2818.
Ehley et al., 2002, “Promoter Scanning for Transcription Inhibition with DNA-Binding Polyamides,” Molecular and Cellular Biology 22(6):1723-1733.
Gottesfeld et al., 2001, “Sequence-specific Recognition of DNA in the Nucleosome by Pyrrole-Imidazole Polyamides,” J. Mol. Biol. 309:615-629.
Gygi et al., 2002, “Use of fluorescent sequence-specific polyamides to discriminate human chromosomes by microscopy and flow cytometry,” Nucleic Acids Res. 30(13):2790-2799.
Hsu et al., 2007, “Completion of a Programmable DNA-Binding Small Molecule Library,” Tetrahedron 63(27):6146-6151.
Hurley, 2002, “DNA and its associated processes as targets for cancer therapy,” Nature Reviews 2:188-200.
Kelly et al., 1996, “Binding site size limit of the 2:1 pyrrole-imidazole polyamide-DNA motif,” Proc. Natl. Acad. Sci. USA 93:6981-6985.
Lacy et al., 2002, “Recognition of T•G mismatched base pairs in DNA by stacked imidazole-containing polyamides: surface plasmon resonance and circular dichroism studies,” Nucleic Acids Res. 30(8):1834-1841.
Lacy et al., 2004, “Energetic basis for selective recognition of T•G mismatched base pairs in DNA by imidazole-rich polyamides,” Nucleic Acids Res. 32(6):2000-2007.
Marques et al., 2002, “Toward an Understanding of the Chemical Etiology for DNA Minor-Groove Recognition by Polyamides,” Helvetica Chimica Acta 85:4485-4517.
Melander et al., 2004, “Regulation of gene expression with pyrrole-imidazole polyamides,” J. Biotechnology 112:195-220.
Neamati et al., 1998, “Highly Potent Synthetic Polyamides, Bisdistamycins, and Lexitropsins as Inhibitors of Human Immunodeficiency Virus Type 1 Integrase,” Molecular Pharmacology 54:280-290.
Nickols et al., 2006, “Improved nuclear localization of DNA-binding polyamides,” Nucleic Acids Res. 35(2):363-370.
Nickols et al., 2007, “Modulating Hypoxia-Inducible Transcription by Disrupting the HF-1DNA Interface,” ACS Chemical Biology 2(8):561-571.
Nickols et al., 2007, “Suppression of androgen receptor-mediated gene expression by a sequence-specific DNA-binding polyamide,” Proc. Natl. Acad. Sci. USA 104(25):10418-10423.
O'Hare et al., “DNA sequence recognition in the minor groove by crosslinked polyamides: The effect of N-terminal head group and linker length on binding affinity and specificity,” Proc. Natl. Acad. Sci. USA 99(1):72-77.
Olenyuk et al., 2004, “Inhibition of vascular endothelial growth factor with a sequence-specific hypoxia response element antagonist,” Proc. Natl. Acad. Sci. USA 101(48):16768-16773.
Philips et al., 2005, “DNA Damage Effects of a Polyamide-CBI Conjugate in SV40 Virions,” Mol. Pharmacol. 67:877-882.
Pilch et al., 1996, “Binding of a hairpin polyamide in the minor groove of DNA: Sequence-specific enthalpic discrimination,” Proc. Natl. Acad. Sci. USA 93:8306-8311.
Sazani et al., 2001, “Nuclear antisense effects of neutral, anionic and cationic oligonucleotide analogs,” Nucleic Acids Res. 29(19):3965-3974.
Schaal et al., 2003, “Inhibition of human papilloma virus E2 DNA binding protein by covalently linked polyamides,” Nucleic Acids Res. 31(4):1282-1291.
Trauger et al., 1996, “Extension of Sequence-Specific Recognition in the Minor Groove of DNA by Pyrrole-Imidazole Polyamides to 9-13 Base Pairs,” J. Am. Chem. Soc. 118:6160-6166.
Tsai et al., 2006, “Unanticipated differences betweenα- and 65 -diaminobutyric acid-linked hairpin polyamide-alkylator conjugates,” Nucleic Acids Res. 35(1):307-316.
Urbach et al., 2001, “Toward rules for 1:1 polyamide:DNA recognition,” Proc. Natl. Acad. Sci. USA 98(8):4343-4348.
Urbach et al., 2002, “Structure of a 62 -Alanine-linked Polyamide Bound to a Full Helical Turn of Purine Tract DNA in the 1:1 Motif,” J. Mol. Biol. 320:55-71.
Wang et al., 2003, “DNA crosslinking and biological activity of a

Affiliated with

Also associated with

Rating

Polyamides with tail structures capable of binding DNA does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with Polyamides with tail structures capable of binding DNA, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Polyamides with tail structures capable of binding DNA will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFUS-PAI-O-2667538