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High affinity ssDNA ligands of HIV-1 reverse transcriptase PDF

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‘ USOO5786462A United States Patent [19] [11] Patent Number: 5,786,462 Schneider et a]. [45] Date of Patent: Jul. 28, 1998 [54] HIGH AFFINITY SSDNA LIGANDS OF HIV-1 Kohlstaedt et al. (1992) Science 256:1783. REVERSE TRANSCRIPTASE Kopp et a1. (1991) Nuc. Acids Res. 19(l1):3035. Krug and Berger (1991) Biochemistry 30110614. [75] Inventors: Daniel J. Schneider; Larry Gold. both Lowary and Uhlenbeck (1987) Nucleic Acids Res. of Boulder. C010.; Juli Feigon. Los 15:10483. Angeles. Calif. Jocobo-Molina et a1. (1993) Proc. Natl. Acad. Sci. USA 90:6320. [73] Assignee: NeXstar Pharmaceuticals, Inc.. Marshall and Caruthers (1993) Science 259:1564. Boulder. Colo. Merluzzi et a1. (1990) Science 250: 1411. Nakane and Ono (1990) Biochemistry 29:2841. [21] Appl. No.: 443,407 Pauwels et al. (1990) Nature 343:470. Peliska and Benkovic (1992) Science 258:1112. [22] Filed: May 17,1995 Schneider et a1. (1993) FASEB 7:201. Temin and Mizutani (1970) Nature 226:1211. Related US. Application Data Tuerk and Gold (1990) Science 249:505. Tuerk et al. (1992) Proc. Natl. Acad. Sci. USA 89:6988. [63] Continuation of Ser. No. 238,863, May 6, 1994, Pat. No. Yarus and Berg (1970) Anal. Biochem. 35:450. 5,503,978, which is a continuation-in-part of Ser. No. 714, 131, Jun. 10, 1991, Pat. No. 5,475,096, which is a continu Zuker (1989) Science 244148. ation-in-pan of Ser. No. 536,428, Jun. 11, 1990, abandoned, Joyce (1989) Gene 82:83. _ and Ser. No. 964,624, Oct. 21, 1992, Pat. No. 5,496,938. Joyce and Inoue (1989) Nucleic Acids Research 17:711. Ellington and Szostak ( 1990) Abstract of papers presented at [51] Int. C135 ........................... .. C0711 21/04; C12Q l/68; C12P 19/34 the 1990 meeting on RNA Processing. Cold Spring Harbor Laboratory. Cold Spring Harbor. NY. p. 226. [52] US. Cl. .......................... .. 536/231; 435/6; 435/921; Kinzler and Vogelstein (1989) Nucleic Acids Research 935/77; 935/78 17:3645. [58] Field of Search ....................... .. 435/6. 91.2; 935/77. Kramer et a1. (1974) J. Mol. Biol. 89:719. 935/78; 536/231 Levisohn and Spiegelman (1969) Proc. Natl. Acad. Sci. USA [56] References Cited 63:805. Levisohn and Spiegelman (1968) Proc. Natl. Acad. Sci. USA U.S. PATENT DOCUMENTS 60:866. Oliphant et a1. (1989) Mol. Cell Biol. 9:2944. 4,833,092 5/1989 Geysen ...................................... .. 435/6 Oliphant and Struhl (1988) Nucleic Acids Research 5,133,866 7/1992 Kauvar . . . . . . . . . . . . . . . . . . . .. 435/6 16:7673. 5,270,163 12/1993 Gold et a1. . . . . . . . . . . . . .. 435/6 Oliphant and Struhl (1987) Methods in Enzymology 5,475,096 12/1995 Gold et a1. 536/221 5,496,938 3/1996 Gold et al. ................................ .. 435/6 155:568. Oliphant et a1. (1986) Gene 44:177. FOREIGN PATENT DOCUMENTS Robertson and Joyce (1990) Nature 344:467. Thiesen and Bach (1990) Nucleic Acids Research 18:3203. 2 183 661 A 6/1987 United Kingdom . WO 89/06694 7/1989 WIPO . Primary Examiner?Stephanie W. Zitomer 9214843 9/1992 WIPO ...................................... .. 435/6 Attorney, Agent, or Firm—Swanson & Bratschun LLC UT HER PUBLICATIONS [57] ABSTRACT Arnold et a1. (1992) Nature 357:85. Methods are described for the identi?cation and preparation Baltimore (1970) Nature 226: 1209. Carey et a1. (1983) Biochemistry 22:2601. of DNA ligands to the HIV-1 reverse transcriptase protein. Included in the invention are speci?c ssDNA ligands to Davies et a1. (1991) Science 252:88. HIV-1 reverse transcriptase identi?ed by the SELEX Gilboa et al. (1979) Cell 18:93. method. Also included are ssDNA ligands that inhibit HIV-1 Huang et a1. (1990) J. Biol. Chem. 265:11914. Irvine et a1. (1991) J. M01. Biol. 2222739. reverse lranscriptase. Jaeger et a1. (1989) Proc. Natl. Acad. Sci. USA 86:7706. Kedar et a1. (1990) Biochemistry 293603. 1 Claim, 26 Drawing Sheets US. Patent Jul. 28, 1998 Sheet 1 of 26 5,786,462 Hm9055z_w53Qo0_0m>3"%*5<<2E0o0wE<02 w US. Patent Jul. 28, 1998 Sheet 2 of 26 5,786,462 UQ0OmZm méé2Eo<u<oEoo‘omqroEk<io--kEoo mw <ooko?5go o 9m 5.<-Eooom<t<wm6-ooook < EmEmEoéEmmEm Z B5z5o.m5zw;?o US. Patent Jul. 28, 1993 Sheet 3 0f 26 5,786,462 100; [[/1PL0L0t] ] 401 20} 1 10 100 1000 [Pt] nM FIG. 2 US. Patent Jul. 28, 1998 Sheet 4 of 26 5,786,462 WMIGA‘I‘I‘CI‘ - [3533] W WW L SEQID NO: 24 30, 3.09 66, 83 79 93 3.01 114 120 21 71 82 90 95 9'7 102 198 3'7 10 FiG, 3A US. Patent Jul. 28, 1993 Sheet 5 of 26 5,786,462 31 28 as 29 100 30 106 31 25 32 "24 33 "H.105 34 84 3s 28 36 94 Q Q WA aw: 3? 113 38 115 ‘ '1‘ x 01cm CAOCTACG 39 19 40 26 v I » 1 41 63 AQCIAATW 32 FIG. 3B US. Patent Jul. 28, 1998 Sheet 6 of 26 5,786,462 SEO 10 NOS; 2 26 ‘31 33 45 12,21,416 ‘53m3m%P{mB5Ew3Qm EmG 13 28 38 41 14 15 48 16,312 n FIG. 4A

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Jocobo-Molina et a1. (1993) Proc. Natl. Acad. Sci. USA UOZ Q0mm. Emém oEZ.m- 5
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