Iwen Fu

Publications

• Fu I, Mu H, Geacintov NE, Broyde S. Mechanism of lesion verification by the human XPD helicase in nucleotide excision repair. Nucleic Acids Res. 2022 Jul 8;50(12):6837-6853. doi: 10.1093/nar/gkac496. PMID: 35713557; PMCID: PMC9262607.
• Fu I, Geacintov NE, Broyde S. Molecular dynamics simulations reveal how H3K56 acetylation impacts nucleosome structure to promote DNA exposure for lesion sensing. DNA Repair (Amst). 2021 Nov;107:103201. doi: 10.1016/j.dnarep.2021.103201. Epub 2021 Aug 8. PMID: 34399316; PMCID: PMC8526387.
• Thomforde J, Fu I, Rodriguez F, Pujari SS, Broyde S, Tretyakova N. Translesion Synthesis Past 5-Formylcytosine-Mediated DNA-Peptide Cross-Links by hPolη Is Dependent on the Local DNA Sequence. Biochemistry. 2021 Jun 15;60(23):1797-1807. doi: 10.1021/acs.biochem.1c00130. Epub 2021 Jun 3. PMID: 34080848; PMCID: PMC8586910.
• Ji S, Park D, Kropachev K, Kolbanovskiy M, Fu I, Broyde S, Essawy M, Geacintov NE, Tretyakova NY. 5-Formylcytosine-induced DNA-peptide cross-links reduce transcription efficiency, but do not cause transcription errors in human cells. J Biol Chem. 2019 Nov 29;294(48):18387-18397. doi: 10.1074/jbc.RA119.009834. Epub 2019 Oct 9. PMID: 31597704; PMCID: PMC6885644.
• Ji S, Thomforde J, Rogers C, Fu I, Broyde S, Tretyakova NY. Transcriptional Bypass of DNA-Protein and DNA-Peptide Conjugates by T7 RNA Polymerase. ACS Chem Biol. 2019 Dec 20;14(12):2564-2575. doi: 10.1021/acschembio.9b00365. Epub 2019 Oct 21. PMID: 31573793; PMCID: PMC8177100.
• Fu I, Smith DJ, Broyde S. Rotational and translational positions determine the structural and dynamic impact of a single ribonucleotide incorporated in the nucleosome. DNA Repair (Amst). 2019 Jan;73:155-163. doi: 10.1016/j.dnarep.2018.11.012. Epub 2018 Nov 29. PMID: 30522887; PMCID: PMC6376976.
• Ji S, Fu I, Naldiga S, Shao H, Basu AK, Broyde S, Tretyakova NY. 5-Formylcytosine mediated DNA-protein cross-links block DNA replication and induce mutations in human cells. Nucleic Acids Res. 2018 Jul 27;46(13):6455-6469. doi: 10.1093/nar/gky444. Erratum in: Nucleic Acids Res. 2018 Oct 12;46(18):9892. PMID: 29905846; PMCID: PMC6061883.
• Ji S, Fu I, Naldiga S, Shao H, Basu AK, Broyde S, Tretyakova NY. Corrigendum: 5-Formylcytosine mediated DNA-protein cross-links block DNA replication and induce mutations in human cells. Nucleic Acids Res. 2018 Oct 12;46(18):9892. doi: 10.1093/nar/gky809. Erratum for: Nucleic Acids Res. 2018 Jul 27;46(13):6455-6469. PMID: 30184121; PMCID: PMC6182154.
• Cai Y, Fu I, Geacintov NE, Zhang Y, Broyde S. Synergistic effects of H3 and H4 nucleosome tails on structure and dynamics of a lesion-containing DNA: Binding of a displaced lesion partner base to the H3 tail for GG-NER recognition. DNA Repair (Amst). 2018 May;65:73-78. doi: 10.1016/j.dnarep.2018.02.009. Epub 2018 Mar 8. PMID: 29631253; PMCID: PMC5911426.
• Fu I, Cai Y, Geacintov NE, Zhang Y, Broyde S. Nucleosome Histone Tail Conformation and Dynamics: Impacts of Lysine Acetylation and a Nearby Minor Groove Benzo[a]pyrene-Derived Lesion. Biochemistry. 2017 Apr 11;56(14):1963-1973. doi: 10.1021/acs.biochem.6b01208. Epub 2017 Mar 22. PMID: 28304160; PMCID: PMC5461660.
• Wickramaratne S, Ji S, Mukherjee S, Su Y, Pence MG, Lior-Hoffmann L, Fu I, Broyde S, Guengerich FP, Distefano M, Schärer OD, Sham YY, Tretyakova N. Bypass of DNA-Protein Cross-links Conjugated to the 7-Deazaguanine Position of DNA by Translesion Synthesis Polymerases. J Biol Chem. 2016 Nov 4;291(45):23589-23603. doi: 10.1074/jbc.M116.745257. Epub 2016 Sep 12. PMID: 27621316; PMCID: PMC5095413.
• Fu I, Cai Y, Zhang Y, Geacintov NE, Broyde S. Entrapment of a Histone Tail by a DNA Lesion in a Nucleosome Suggests the Lesion Impacts Epigenetic Marking: A Molecular Dynamics Study. Biochemistry. 2016 Jan 19;55(2):239-42. doi: 10.1021/acs.biochem.5b01166. Epub 2016 Jan 6. PMID: 26709619; PMCID: PMC4721520.
• Fu I, Case DA, Baum J. Dynamic Water-Mediated Hydrogen Bonding in a Collagen Model Peptide. Biochemistry. 2015 Oct 6;54(39):6029-37. doi: 10.1021/acs.biochem.5b00622. PMID: 26339765; PMCID: PMC4648280.