Modified oligonucleotides, their preparation and their use
First Claim
Patent Images
1. A compound of the formula VII ##STR38## in which E and F are, independently of each other, OH or NH2, and OH and NH2 are protected by a protective group;
- R15 and R16 are, independently of each other, selected from the group consisting of hydrogen, (C1 -C10)-alkyl, (C2 -C10)-alkenyl, (C2 -C10)-alkynyl, I, Cl, Br, F and cyano, wherein in any of said (C1 -C10)-alkyl, (C2 -C10)-alkenyl, (C2 -C10)-alkynyl, from one to all the H atoms may be substituted by halogen; and
wherein when R15 and R16 are identical, they cannot be hydrogen or cyano, and with the further proviso that R15 is not I if R16 is hydrogen, E is NH2 and F is OH,R14 are, independently of each other, H or a protective group which is customary in nucleotide chemistry.
3 Assignments
0 Petitions
Accused Products
Abstract
Modified oligonucleotides which possess at least one substituted 7-deazapurine base form more stable hybridization complexes with nucleic acids than unsubstituted analogs. They are useful as inhibitors of gene expression, as probes for detecting nucleic acids, as aids in molecular biology and as pharmaceuticals or diagnostic agents. Processes for preparing them are provided.
75 Citations
8 Claims
-
1. A compound of the formula VII ##STR38## in which E and F are, independently of each other, OH or NH2, and OH and NH2 are protected by a protective group;
-
R15 and R16 are, independently of each other, selected from the group consisting of hydrogen, (C1 -C10)-alkyl, (C2 -C10)-alkenyl, (C2 -C10)-alkynyl, I, Cl, Br, F and cyano, wherein in any of said (C1 -C10)-alkyl, (C2 -C10)-alkenyl, (C2 -C10)-alkynyl, from one to all the H atoms may be substituted by halogen; and
wherein when R15 and R16 are identical, they cannot be hydrogen or cyano, and with the further proviso that R15 is not I if R16 is hydrogen, E is NH2 and F is OH,R14 are, independently of each other, H or a protective group which is customary in nucleotide chemistry. - View Dependent Claims (2)
-
-
3. A nucleotide monomer of the formula V ##STR39## in which V is oxy, sulfanediyl or imino;
-
Yb is oxy, sulfanediyl or methylene; a is oxy, sulfanediyl or methylene; R2b is hydrogen, OR12, C1 -C18 -alkoxy, C1 -C6 -alkenyl-oxy, halogen, azido or NR10 R11 ; R1 is a protective group; R1b is a linker, optionally linked to a solid support, or is a radical of the formula IIIc or IIId ##STR40## in which U is (C1 -C18)-alkoxy, (C1 -C18)-alkyl, (C6 -C20)-aryl, (C6 -C14)-aryl-(C1 -C8)-alkyl, O--R7, S--R7 or a radical of the formula IV
space="preserve" listing-type="equation">(OCH.sub.2 CH.sub.2).sub.p O(CH.sub.2).sub.q (CH.sub.2 R.sup.5)(IV)in which R5 is H; Q is a radical --NR8 R9, R7 is --(CH2)2 --CN; R8 and R9 are identical or different and are C1 -C6 -alkyl, or, together with the nitrogen atom carrying them, are a 5-9-membered heterocyclic ring which can additionally contain a further O, S or N heteroatom; E'"'"' and F'"'"' are, independently of each other, H, OR12 or NR10 R11, R10 and R11 are identical or different and are hydrogen or an amino protective group, or R10 and R11 together form an amino protective group, R12 is hydrogen or a hydroxyl protective group; R15 is selected from the group of radicals consisting of; (1) hydrogen, (2) halogen, (3) (C1 -C10)-alkyl, (4) (C2 -C10)-alkenyl, (5) (C2 -C10)-alkynyl, (6) NO2, (7) NH2, (8) cyano, (9) --S--(C1 -C6)-alkyl, (10) (C1 -C6)-alkoxy, (11) --(C6 -C20)-aryloxy, (12) SiH3, (13) ##STR41## (14) radical (3), (4) or (5) substituted by one or more radicals selected from the group consisting of SH, S--(C1 -C6)-alkyl, (C1 -C6)-alkoxy, OH, --NR(c)R(d), --CO--R(b), --NH--CO--NR(c)R(d), --NR(c)R(g), --NR(e)R(f), and --NR(e)R(g), or by a polyalkyleneglycol radical of the formula --[O--(CH2)r ]s --NR(c)R(d), where r and s are, independently of each other, an integer from 1 to 18, wherein any of the foregoing OH, SH, --CO--R(b), --NH--CO--NR(c)R(d), --NR(c)R(d), --NR(e)R(f), and --NR(e)R(g) or --NR(c)R(g) groups optionally carries a protective group or is linked, optionally via a further linker, to one or more groups which favor intracellular uptake or serve for labeling a DNA or RNA probe, or, when the oligonucleotide analog hybridizes to the target nucleic acid, attack the latter while binding, cross-linking or cleaving, and (15) radical (3), (4) or (5) in which from one to all the H atoms are substituted by halogen; R16 is selected from the group of radicals consisting of radicals (2) to (15);
with the provisos that;R15 and R16 cannot both be NO2, NH2, cyano or SiH3 ; R(a) is OH, (C1 -C6)-alkoxy, (C6 -C20)-aryloxy, NH2 or NH--T, where T is an alkylcarboxyl group or alkylamino group which is linked, optionally via a further linker, to one or more groups which favor intracellular uptake or serve as labeling for a DNA or RNA probe or, when the oligonucleotide analog hybridizes to the target nucleic acid, attack the latter while binding, cross-linking or cleaving, R(b) is hydroxyl, (C1 -C6)-alkoxy or --NR(c)R(d), R(c) and R(d) are, independently of each other, H or (C1 -C6)-alkyl which is unsubstituted or substituted by --NR(e)R(f) or --NR(e)R(g), R(e) and R(f) are, independently of each other, H or (C1 -C6)-alkyl, R(g) is (C1 -C6)-alkyl-COOH; with functional groups such as OH, NH2 or COOH being optionally protected with a protective group and the curved bracket indicating that R2b and the adjacent --Yb --R1b radical can be located in the 2'"'"' and 3'"'"' position or else, conversely, in the 3'"'"' and 2'"'"' position. - View Dependent Claims (7)
-
-
4. A nucleotide monomer of the formula V ##STR42## in which V is oxy, sulfanediyl or imino;
-
Yb is oxy, sulfanediyl or methylene; a is oxy, sulfanediyl or methylene; R2b is hydrogen, OR12, C1 -C18 -alkoxy, C1 -C6 -alkenyl-oxy, halogen, azido or NR10 R11 ; R1 is a protective group; R1b is a succinyl linker radical, bearing an activated ester; E'"'"' and F'"'"' are, independently of each other, H, OR12 or NR10 OR11, R10 and R11 are identical or different and are hydrogen or an amino protective group, or R10 and R11 together form an amino protective group, R12 is hydrogen or a hydroxyl protective group; R15 and R16 are, independently of each other, selected from the group of radicals consisting of; (1) hydrogen, (2) halogen, (3) (C1 -C10)-alkyl, (4) (C2 -C10)-alkenyl, (5) (C2 -C10)-alkynyl, (6) NO2, (7) NH2, (8) cyano, (9) --S--(C1 -C6)-alkyl, (10) (C1 -C6)-alkoxy, (11) --(C6 -C20)-aryloxy, (12) SiH3, (13) ##STR43## (14) radical (3), (4) or (5) substituted by one or more radicals selected from the group consisting of SH, S--(C1 -C6)-alkyl, (C1 -C6)-alkoxy, OH, --NR(c)R(d), --CO--R(b), --NH--CO--NR(c)R(d), --NR(c)R(g), --NR(e)R(f), and --NR(e)R(g), or by a polyalkyleneglycol radical of the formula --[O--(CH2)r ]s --NR(c)R(d), where r and s are, independently of each other, an integer from 1 to 18, wherein any of the foregoing OH, SH, --CO--R(b), --NH--CO--NR(c)R(d), --NR(c)R(d), --NR(e)R(f), and --NR(e)R(g) or --NR(c)R(g) groups optionally carries a protective group or is linked, optionally via a further linker, to one or more groups which favor intracellular uptake or serve for labeling a DNA or RNA probe, or, when the oligonucleotide analog hybridizes to the target nucleic acid, attack the latter while binding, cross-linking or cleaving, and (15) radical (3), (4) or (5) in which from one to all the H atoms are substituted by halogen; with the provisos that; when R15 is hydrogen, R16 is selected from the group of radicals consisting of radicals (2)-(15);
when R16 is hydrogen, R15 is selected from the group of radicals consisting of radicals (2), (6), (7), (9), (10), (11), (12), (13), (14), (15), ethy, propyl, isobutyl, pentyl, hexyl, heptyl, 1-hexenyl and 1-heptenyl; and
R15 and R16 cannot both be NO2, NH2, cyano or SiH3 ;R(a) is OH, (C1 -C6)-alkoxy, (C6 -C20)-aryloxy, NH2 or NH--T, where T is an alkylcarboxyl group or alkylamino group which is linked, optionally via a further linker, to one or more groups which favor intracellular uptake or serve as labeling for a DNA or RNA probe or, when the oligonucleotide analog hybridizes to the target nucleic acid, attack the latter while binding, cross-linking or cleaving, R(b) is hydroxyl, (C1 -C6)-alkoxy or --NR(c)R(d), R(c) and R(d) are, independently of each other, H or (C1 -C6)-alkyl which is unsubstituted or substituted by --NR(e)R(f) or --NR(e)R(g), R(e) and R(f) are, independently of each other, H or (C1 -C6)-alkyl, R(g) is (C1 -C6)-alkyl-COOH; with functional groups such as OH, NH2 or COOH being optionally protected with a protective group and the curved bracket indicating that R2b and the adjacent --Yb --R1b radical can be located in the 2'"'"' and 3'"'"' position or else, conversely, in the 3'"'"' and 2'"'"' position.
-
-
5. A compound of the formula VI ##STR44## in which, independently of each other, U'"'"'=U"=U'"'"'" is hydroxyl or mercapto;
-
e and f are 0 or 1; R13 is hydrogen, OH, C1 -C18 -alkoxy, or C1 -C6 -alkenyloxy; E and F are, independently of each other, H, OH or NH2 ; and R15 and R16 are, independently of each other, selected from the group of radicals consisting of; (1) hydrogen, (2) halogen, (3) (C1 -C10)-alkyl, (4) (C2 -C10)-alkenyl, (5) (C2 -C10)-alkynyl, (6) NO2, (7) NH2, (8) cyano, (9) --S--(C1 -C6)-alkyl, (10) (C1 -C6)-alkoxy, (11) --(C6 -C20)-aryloxy, (12) SiH3, (13) ##STR45## (14) radical (3), (4) or (5) which is substituted by one or more radicals selected from the group consisting of SH, S--(C1 -C6)-alkyl, (C1 -C6)-alkoxy, OH, --NR(c)R(d), --CO--R(b), --NH--CO--NR(c)R(d), --NR(c)R(g), --NR(e)R(f), and --NR(e)R(g), or by a polyalkyleneglycol radical of the formula --[O--(CH2)r ]s --NR(c)R(d), where r and s are, independently of each other, an integer from 1 to 18, wherein any of the foregoing OH, SH, --CO--R(b), --NH--CO--NR(c)R(d), --NR(c)R(d), --NR(e)R(f), and --NR(e)R(g) or --NR(c)R(g) groups optionally is linked, optimally via a further linker, to one or more groups which favor intracellular uptake or serve as labeling for a DNA or RNA probe or, when the oligonucleotide analog hydridizes to the target nucleic acid, attack the latter while binding, cross-linking or cleaving, or (15) radical (3), (4) or (5) in which from one to all the H atoms are substituted by halogen; and with the provisos that; at least one of R15 and R16 is a radical defined under (3), (4) or (5) in which one to all the H atoms is/are substituted by fluorine; R(a) is OH, (C1 -C6)-alkoxy, (C6 -C20)-aryloxy, NH2 or NH--T, with T representing an alkylcarboxyl group or alkylamino group which optionally is linked, optionally via a further linker, to one or more groups which favor intracellular uptake or serve as labeling for a DNA or RNA probe or, when the oligonucleotide analog hybridizes to the target nucleic acid, attack the latter while binding, cross-linking or cleaving, R(b) is hydroxyl, (C1 -C6)-alkoxy or --NR(c)R(d), R(c) and R(d) are, independently of each other, H or (C1 -C6)-alkyl which is unsubstituted or substituted by --NR(e)R(f) or --NR(e)R(g), R(e) and R(f) are, independently of each other, H or (C1 -C6)-alkyl, and R(g) is (C1 -C6)-alkyl-COOH.
-
-
6. A compound of the formula VI ##STR46## in which, independently of each other, U'"'"'=U"=U'"'"'" is hydroxyl or mercapto;
-
e and f are 0 or 1; R13 is hydrogen, OH, C1 -C18 -alkoxy, or C1 -C6 -alkenyloxy; E and F are, independently of each other, H, OH or NH2 ; and R15 is selected from the group of radicals consisting of; (1) hydrogen, (2) halogen, (3) (C1 -C10)-alkyl, (4) (C2 -C10)-alkenyl, (5) (C2 -C10)-alkynyl, (6) NO2, (7) NH2, (8) cyano, (9) --S--(C1 -C6)-alkyl, (10) (C1 -C6)-alkoxy, (11) --(C6 -C20)-aryloxy, (12) SiH3, (13) ##STR47## (14) radical (3), (4) or (5) which is substituted by one or more radicals selected from the group consisting of SH, S--(C1 -C6)-alkyl, (C1 -C6)-alkoxy, OH, --NR(c)R(d), --CO--R(b), --NH--CO--NR(c)R(d), --NR(c)R(g), --NR(e)R(f), and --NR(e)R(g), or by a polyalkyleneglycol radical of the formula --[O--(CH2)r ]s --NR(c)R(d), where r and s are, independently of each other, an integer from 1 to 18, wherein any of the foregoing OH, SH, --CO--R(b), --NH--CO--NR(c)R(d), --NR(c)R(d), --NR(e)R(f), and --NR(e)R(g) or --NR(c)R(g) groups optionally is linked, optimally via a further linker, to one or more groups which favor intracellular uptake or serve as labeling for a DNA or RNA probe or, when the oligonucleotide analog hybridizes to the target nucleic acid, attack the latter while binding, cross-linking or cleaving, or (15) radical (3), (4) or (5) in which from one to all the H atoms are substituted by halogen; R16 is selected from the group of radicals consisting of radicals (2) to (15); and
with the provisos that;R15 and R16 cannot both be NO2, NH2, cyano or SiH3 ; R(a) is OH, (C1 -C6)-alkoxy, (C6 -C20)-aryloxy, NH2 or NH--T, with T representing an alkylcarboxyl group or alkylamino group which optionally is linked, optionally via a further linker, to one or more groups which favor intracellular uptake or serve as labeling for a DNA or RNA probe or, when the oligonucleotide analog hybridizes to the target nucleic acid, attack the latter while binding, cross-linking or cleaving, R(b) is hydroxyl, (C1 -C6)-alkoxy or --NR(c)R(d), R(c) and R(d) are, independently of each other, H or (C1 -C6)-alkyl which is unsubstituted or substituted by --NR(e)R(f) or --NR(e)R(g), R(e) and R(f) are, independently of each other, H or (C1 -C6)-alkyl, and R(g) is (C1 -C6)-alkyl-COOH. - View Dependent Claims (8)
-
Specification
-
- Resources
Litigation Campaign Assessment
Thank you for your request. You will receive a custom alert email when the Litigation Campaign Assessment is available.
×
-
Current AssigneeSanofi-Aventis Deutschland GmbH (Sanofi )
-
Original AssigneeAventis Pharma Deutschland GmbH (Sanofi )
-
InventorsSeela, Frank, Thomas, Horst
-
Primary Examiner(s)Riley, Jezia
-
Application NumberUS09/144,112Time in Patent Office813 DaysField of Search536/22.1, 536/23.1, 536/24.1, 536/24.3, 536/25.3, 536/25.6, 536/24.5, 536/27.1, 536/27.11, 536/27.13, 435/6, 435/91.1, 435/91.2, 514/44US Class Current536/22.1CPC Class CodesC07H 19/044 Pyrrole radicalsC07H 19/10 with the saccharide radical...C07H 19/14 Pyrrolo-pyrimidine radicalsC07H 21/00 Compounds containing two or...
