 Connection
Kevin Raney to DNA
This is a "connection" page, showing publications Kevin Raney has written about DNA.
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Connection Strength |
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7.427 |
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Gao J, Gao Z, Putnam AA, Byrd AK, Venus SL, Marecki JC, Edwards AD, Lowe HM, Jankowsky E, Raney KD. G-quadruplex DNA inhibits unwinding activity but promotes liquid-liquid phase separation by the DEAD-box helicase Ded1p. Chem Commun (Camb). 2021 Jul 27; 57(60):7445-7448.
Score: 0.611
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Byrd AK, Raney KD. Structure and function of Pif1 helicase. Biochem Soc Trans. 2017 Oct 15; 45(5):1159-1171.
Score: 0.467
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Reynolds KA, Cameron CE, Raney KD. Melting of Duplex DNA in the Absence of ATP by the NS3 Helicase Domain through Specific Interaction with a Single-Strand/Double-Strand Junction. Biochemistry. 2015 Jul 14; 54(27):4248-58.
Score: 0.401
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Gao J, Zybailov BL, Byrd AK, Griffin WC, Chib S, Mackintosh SG, Tackett AJ, Raney KD. Yeast transcription co-activator Sub1 and its human homolog PC4 preferentially bind to G-quadruplex DNA. Chem Commun (Camb). 2015 Apr 28; 51(33):7242-4.
Score: 0.396
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Reynolds KA, Raney VM, Raney KD. Probing RNA translocases with DNA. Methods Mol Biol. 2015; 1259:275-91.
Score: 0.388
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Aarattuthodiyil S, Byrd AK, Raney KD. Simultaneous binding to the tracking strand, displaced strand and the duplex of a DNA fork enhances unwinding by Dda helicase. Nucleic Acids Res. 2014 Oct; 42(18):11707-20.
Score: 0.380
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Raney KD. Chemical modifications of DNA for study of helicase mechanisms. Bioorg Med Chem. 2014 Aug 15; 22(16):4399-406.
Score: 0.372
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Raney VM, Reynolds KA, Harrison MK, Harrison DK, Cameron CE, Raney KD. Binding by the hepatitis C virus NS3 helicase partially melts duplex DNA. Biochemistry. 2012 Sep 25; 51(38):7596-607.
Score: 0.331
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Eoff RL, Raney KD. Kinetic mechanism for DNA unwinding by multiple molecules of Dda helicase aligned on DNA. Biochemistry. 2010 Jun 01; 49(21):4543-53.
Score: 0.282
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Yeruva L, Raney KD. Protein displacement by helicases. Methods Mol Biol. 2010; 587:85-98.
Score: 0.274
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Jennings TA, Mackintosh SG, Harrison MK, Sikora D, Sikora B, Dave B, Tackett AJ, Cameron CE, Raney KD. NS3 helicase from the hepatitis C virus can function as a monomer or oligomer depending on enzyme and substrate concentrations. J Biol Chem. 2009 Feb 20; 284(8):4806-14.
Score: 0.255
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Sikora B, Chen Y, Lichti CF, Harrison MK, Jennings TA, Tang Y, Tackett AJ, Jordan JB, Sakon J, Cameron CE, Raney KD. Hepatitis C virus NS3 helicase forms oligomeric structures that exhibit optimal DNA unwinding activity in vitro. J Biol Chem. 2008 Apr 25; 283(17):11516-25.
Score: 0.241
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Sikora B, Eoff RL, Matson SW, Raney KD. DNA unwinding by Escherichia coli DNA helicase I (TraI) provides evidence for a processive monomeric molecular motor. J Biol Chem. 2006 Nov 24; 281(47):36110-6.
Score: 0.218
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Mackintosh SG, Raney KD. DNA unwinding and protein displacement by superfamily 1 and superfamily 2 helicases. Nucleic Acids Res. 2006; 34(15):4154-9.
Score: 0.217
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Eoff RL, Raney KD. Intermediates revealed in the kinetic mechanism for DNA unwinding by a monomeric helicase. Nat Struct Mol Biol. 2006 Mar; 13(3):242-9.
Score: 0.209
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Spurling TL, Eoff RL, Raney KD. Dda helicase unwinds a DNA-PNA chimeric substrate: evidence for an inchworm mechanism. Bioorg Med Chem Lett. 2006 Apr 01; 16(7):1816-20.
Score: 0.209
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Eoff RL, Raney KD. Helicase-catalysed translocation and strand separation. Biochem Soc Trans. 2005 Dec; 33(Pt 6):1474-8.
Score: 0.207
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Byrd AK, Raney KD. Increasing the length of the single-stranded overhang enhances unwinding of duplex DNA by bacteriophage T4 Dda helicase. Biochemistry. 2005 Oct 04; 44(39):12990-7.
Score: 0.204
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Tackett AJ, Chen Y, Cameron CE, Raney KD. Multiple full-length NS3 molecules are required for optimal unwinding of oligonucleotide DNA in vitro. J Biol Chem. 2005 Mar 18; 280(11):10797-806.
Score: 0.194
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Chib S, Griffin WC, Gao J, Proffitt DR, Byrd AK, Raney KD. Pif1 Helicase Mediates Remodeling of Protein-Nucleic Acid Complexes by Promoting Dissociation of Sub1 from G-Quadruplex DNA and Cdc13 from G-Rich Single-Stranded DNA. Biochemistry. 2023 12 05; 62(23):3360-3372.
Score: 0.179
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Ozaslan D, Byrd AK, Belachew B, Raney KD. Alignment of helicases on single-stranded DNA increases activity. Methods Enzymol. 2022; 672:29-54.
Score: 0.161
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Byrd AK, Malone EG, Hazeslip L, Zafar MK, Harrison DK, Thompson MD, Gao J, Perumal SK, Marecki JC, Raney KD. A structural feature of Dda helicase which enhances displacement of streptavidin and trp repressor from DNA. Protein Sci. 2022 02; 31(2):407-421.
Score: 0.156
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Nanduri B, Eoff RL, Tackett AJ, Raney KD. Measurement of steady-state kinetic parameters for DNA unwinding by the bacteriophage T4 Dda helicase: use of peptide nucleic acids to trap single-stranded DNA products of helicase reactions. Nucleic Acids Res. 2001 Jul 01; 29(13):2829-35.
Score: 0.152
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Singh A, Pandey M, Nandakumar D, Raney KD, Yin YW, Patel SS. Excessive excision of correct nucleotides during DNA synthesis explained by replication hurdles. EMBO J. 2020 03 16; 39(6):e103367.
Score: 0.138
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Su N, Byrd AK, Bharath SR, Yang O, Jia Y, Tang X, Ha T, Raney KD, Song H. Structural basis for DNA unwinding at forked dsDNA by two coordinating Pif1 helicases. Nat Commun. 2019 11 26; 10(1):5375.
Score: 0.136
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Raney KD, Sowers LC, Millar DP, Benkovic SJ. A fluorescence-based assay for monitoring helicase activity. Proc Natl Acad Sci U S A. 1994 Jul 05; 91(14):6644-8.
Score: 0.094
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Zybailov BL, Sherpa MD, Glazko GV, Raney KD, Glazko VI. [G4-quadruplexes and genome instability]. Mol Biol (Mosk). 2013 Mar-Apr; 47(2):224-31.
Score: 0.085
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He X, Byrd AK, Yun MK, Pemble CW, Harrison D, Yeruva L, Dahl C, Kreuzer KN, Raney KD, White SW. The T4 phage SF1B helicase Dda is structurally optimized to perform DNA strand separation. Structure. 2012 Jul 03; 20(7):1189-200.
Score: 0.081
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Raney KD, Gopalakrishnan S, Byrd S, Stone MP, Harris TM. Alteration of the aflatoxin cyclopentenone ring to a delta-lactone reduces intercalation with DNA and decreases formation of guanine N7 adducts by aflatoxin epoxides. Chem Res Toxicol. 1990 May-Jun; 3(3):254-61.
Score: 0.070
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Blair LP, Tackett AJ, Raney KD. Development and evaluation of a structural model for SF1B helicase Dda. Biochemistry. 2009 Mar 24; 48(11):2321-9.
Score: 0.065
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Jennings TA, Chen Y, Sikora D, Harrison MK, Sikora B, Huang L, Jankowsky E, Fairman ME, Cameron CE, Raney KD. RNA unwinding activity of the hepatitis C virus NS3 helicase is modulated by the NS5B polymerase. Biochemistry. 2008 Jan 29; 47(4):1126-35.
Score: 0.060
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Byrd AK, Raney KD. Displacement of a DNA binding protein by Dda helicase. Nucleic Acids Res. 2006; 34(10):3020-9.
Score: 0.053
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Hong Z, Byrd AK, Gao J, Das P, Tan VQ, Malone EG, Osei B, Marecki JC, Protacio RU, Wahls WP, Raney KD, Song H. Eukaryotic Pif1 helicase unwinds G-quadruplex and dsDNA using a conserved wedge. Nat Commun. 2024 Jul 19; 15(1):6104.
Score: 0.047
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Morris PD, Tackett AJ, Raney KD. Biotin-streptavidin-labeled oligonucleotides as probes of helicase mechanisms. Methods. 2001 Feb; 23(2):149-59.
Score: 0.037
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Raney KD, Shimada T, Kim DH, Groopman JD, Harris TM, Guengerich FP. Oxidation of aflatoxins and sterigmatocystin by human liver microsomes: significance of aflatoxin Q1 as a detoxication product of aflatoxin B1. Chem Res Toxicol. 1992 Mar-Apr; 5(2):202-10.
Score: 0.020
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Mackintosh SG, Lu JZ, Jordan JB, Harrison MK, Sikora B, Sharma SD, Cameron CE, Raney KD, Sakon J. Structural and biological identification of residues on the surface of NS3 helicase required for optimal replication of the hepatitis C virus. J Biol Chem. 2006 Feb 10; 281(6):3528-35.
Score: 0.013
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Ziemba AJ, Reed MW, Raney KD, Byrd AB, Ebbinghaus SW. A bis-alkylating triplex forming oligonucleotide inhibits intracellular reporter gene expression and prevents triplex unwinding due to helicase activity. Biochemistry. 2003 May 06; 42(17):5013-24.
Score: 0.011
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Guengerich FP, Raney KD, Kim DH, Shimada T, Meyer DJ, Ketterer B, Harris TM. Oxidation and conjugation of aflatoxins by humans and experimental animals. Prog Clin Biol Res. 1992; 374:157-65.
Score: 0.005
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Baertschi SW, Raney KD, Shimada T, Harris TM, Guengerich FP. Comparison of rates of enzymatic oxidation of aflatoxin B1, aflatoxin G1, and sterigmatocystin and activities of the epoxides in forming guanyl-N7 adducts and inducing different genetic responses. Chem Res Toxicol. 1989 Mar-Apr; 2(2):114-2.
Score: 0.004
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Connection Strength
The connection strength for concepts is the sum of the scores for each matching publication.
Publication scores are based on many factors, including how long ago they were written and whether the person is a first or senior author.
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