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Connection

Alicia Byrd to DNA, Single-Stranded

This is a "connection" page, showing publications Alicia Byrd has written about DNA, Single-Stranded.

 
Connection Strength
  
 
 
3.404
  
  1. Thompson MD, Malone EG, Byrd AK. Monitoring helicase-catalyzed unwinding of multiple duplexes simultaneously. Methods Enzymol. 2022; 672:1-27.
    View in: PubMed
    Score: 0.779
  2. Byrd AK, Bell MR, Raney KD. Pif1 helicase unfolding of G-quadruplex DNA is highly dependent on sequence and reaction conditions. J Biol Chem. 2018 11 16; 293(46):17792-17802.
    View in: PubMed
    Score: 0.612
  3. Byrd AK, Matlock DL, Bagchi D, Aarattuthodiyil S, Harrison D, Croquette V, Raney KD. Dda helicase tightly couples translocation on single-stranded DNA to unwinding of duplex DNA: Dda is an optimally active helicase. J Mol Biol. 2012 Jul 13; 420(3):141-54.
    View in: PubMed
    Score: 0.391
  4. Byrd AK, Raney KD. Protein displacement by an assembly of helicase molecules aligned along single-stranded DNA. Nat Struct Mol Biol. 2004 Jun; 11(6):531-8.
    View in: PubMed
    Score: 0.226
  5. Ozaslan D, Byrd AK, Belachew B, Raney KD. Alignment of helicases on single-stranded DNA increases activity. Methods Enzymol. 2022; 672:29-54.
    View in: PubMed
    Score: 0.196
  6. 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.
    View in: PubMed
    Score: 0.190
  7. Lu C, Le S, Chen J, Byrd AK, Rhodes D, Raney KD, Yan J. Direct quantification of the translocation activities of Saccharomyces cerevisiae Pif1 helicase. Nucleic Acids Res. 2019 08 22; 47(14):7494-7501.
    View in: PubMed
    Score: 0.163
  8. Griffin WC, Gao J, Byrd AK, Chib S, Raney KD. A biochemical and biophysical model of G-quadruplex DNA recognition by positive coactivator of transcription 4. J Biol Chem. 2017 06 09; 292(23):9567-9582.
    View in: PubMed
    Score: 0.138
  9. Byrd AK, Raney KD. A parallel quadruplex DNA is bound tightly but unfolded slowly by pif1 helicase. J Biol Chem. 2015 Mar 06; 290(10):6482-94.
    View in: PubMed
    Score: 0.118
  10. Ramanagoudr-Bhojappa R, Chib S, Byrd AK, Aarattuthodiyil S, Pandey M, Patel SS, Raney KD. Yeast Pif1 helicase exhibits a one-base-pair stepping mechanism for unwinding duplex DNA. J Biol Chem. 2013 May 31; 288(22):16185-95.
    View in: PubMed
    Score: 0.105
  11. 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.
    View in: PubMed
    Score: 0.099
  12. Byrd AK, Raney KD. Displacement of a DNA binding protein by Dda helicase. Nucleic Acids Res. 2006; 34(10):3020-9.
    View in: PubMed
    Score: 0.065
  13. 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.
    View in: PubMed
    Score: 0.057
  14. Gao J, Proffitt DR, Marecki JC, Protacio RU, Wahls WP, Byrd AK, Raney KD. Two residues in the DNA binding site of Pif1 helicase are essential for nuclear functions but dispensable for mitochondrial respiratory growth. Nucleic Acids Res. 2024 Jun 24; 52(11):6543-6557.
    View in: PubMed
    Score: 0.057
  15. 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.
    View in: PubMed
    Score: 0.055
  16. Morris PD, Byrd AK, Tackett AJ, Cameron CE, Tanega P, Ott R, Fanning E, Raney KD. Hepatitis C virus NS3 and simian virus 40 T antigen helicases displace streptavidin from 5'-biotinylated oligonucleotides but not from 3'-biotinylated oligonucleotides: evidence for directional bias in translocation on single-stranded DNA. Biochemistry. 2002 Feb 19; 41(7):2372-8.
    View in: PubMed
    Score: 0.048
  17. Yu C, Tan HY, Choi M, Stanenas AJ, Byrd AK, D Raney K, Cohan CS, Bianco PR. SSB binds to the RecG and PriA helicases in?vivo in the absence of DNA. Genes Cells. 2016 Feb; 21(2):163-84.
    View in: PubMed
    Score: 0.032
  18. 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.
    View in: PubMed
    Score: 0.029
  19. Liu J, Choi M, Stanenas AG, Byrd AK, Raney KD, Cohan C, Bianco PR. Novel, fluorescent, SSB protein chimeras with broad utility. Protein Sci. 2011 Jun; 20(6):1005-20.
    View in: PubMed
    Score: 0.023
  20. Matlock DL, Yeruva L, Byrd AK, Mackintosh SG, Langston C, Brown C, Cameron CE, Fischer CJ, Raney KD. Investigation of translocation, DNA unwinding, and protein displacement by NS3h, the helicase domain from the hepatitis C virus helicase. Biochemistry. 2010 Mar 16; 49(10):2097-109.
    View in: PubMed
    Score: 0.021
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.