Ph.D. (Physical Chemistry), Polytechnic Institute of Brooklyn
B.S. (magna cum laude, honors in Chemistry), City College
Suse Broyde
Professor of Biology
DNA damage induced by environmental and endogenous carcinogens, mutagenesis and repair
Affiliate Professor of Chemistry
Biophysical Society, American Association for the Advancement of Science, American Chemical Society, New York Academy of Sciences, American Association for Cancer Research
Phi Beta Kappa; Sigma Xi; Outstanding Woman Scientist, Association for Women in Science, 1995; Margaret and Herman Sokol Award in the Sciences; American Chemical Society Division of Chemical Toxicology Founder's Award 2016
Date of these PubMed search results: March 24 2020
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- Variable impact of conformationally distinct DNA lesions on nucleosome structure and dynamics: Implications for nucleotide excision repair.
DNA Repair (Amst) (2020 Mar) PMC7060790 free full-text archive
Cai Y, Geacintov NE, Broyde S - 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) PMC6885644 free full-text archive
Ji S, Park D, Kropachev K, Kolbanovskiy M, Fu I, Broyde S, Essawy M, Geacintov NE, Tretyakova NY - Transcriptional Bypass of DNA-Protein and DNA-Peptide Conjugates by T7 RNA Polymerase.
ACS Chem Biol (2019 Dec 20) PMID: 31573793
Ji S, Thomforde J, Rogers C, Fu I, Broyde S, Tretyakova NY - Structure and mechanism of pyrimidine-pyrimidone (6-4) photoproduct recognition by the Rad4/XPC nucleotide excision repair complex.
Nucleic Acids Res (2019 Jul 9) PMC6614856 free full-text archive
Paul D, Mu H, Zhao H, Ouerfelli O, Jeffrey PD, Broyde S, Min JH - Nucleotide Excision Repair and Impact of Site-Specific 5',8-Cyclopurine and Bulky DNA Lesions on the Physical Properties of Nucleosomes.
Biochemistry (2019 Feb 12) PMC6373774 free full-text archive
Shafirovich V, Kolbanovskiy M, Kropachev K, Liu Z, Cai Y, Terzidis MA, Masi A, Chatgilialoglu C, Amin S, Dadali A, Broyde S, Geacintov NE - Rotational and translational positions determine the structural and dynamic impact of a single ribonucleotide incorporated in the nucleosome.
DNA Repair (Amst) (2019 Jan) PMC6376976 free full-text archive
Fu I, Smith DJ, Broyde S - Lesion Sensing during Initial Binding by Yeast XPC/Rad4: Toward Predicting Resistance to Nucleotide Excision Repair.
Chem Res Toxicol (2018 Nov 19) PMC6247245 free full-text archive
Mu H, Zhang Y, Geacintov NE, Broyde S - Corrigendum: 5-Formylcytosine mediated DNA-protein cross-links block DNA replication and induce mutations in human cells.
Nucleic Acids Res (2018 Oct 12) PMC6182154 free full-text archive
Ji S, Fu I, Naldiga S, Shao H, Basu AK, Broyde S, Tretyakova NY - Molecular basis for damage recognition and verification by XPC-RAD23B and TFIIH in nucleotide excision repair.
DNA Repair (Amst) (2018 Nov) PMC6340764 free full-text archive
Mu H, Geacintov NE, Broyde S, Yeo JE, Scharer OD - 5-Formylcytosine mediated DNA-protein cross-links block DNA replication and induce mutations in human cells.
Nucleic Acids Res (2018 Jul 27) PMC6061883 free full-text archive
Ji S, Fu I, Naldiga S, Shao H, Basu AK, Broyde S, Tretyakova NY - 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) PMC5911426 free full-text archive
Cai Y, Fu I, Geacintov NE, Zhang Y, Broyde S - Enhanced spontaneous DNA twisting/bending fluctuations unveiled by fluorescence lifetime distributions promote mismatch recognition by the Rad4 nucleotide excision repair complex.
Nucleic Acids Res (2018 Feb 16) PMC5815138 free full-text archive
Chakraborty S, Steinbach PJ, Paul D, Mu H, Broyde S, Min JH, Ansari A - Repair-Resistant DNA Lesions.
Chem Res Toxicol (2017 Aug 21) PMC5569670 free full-text archive
Geacintov NE, Broyde S - The Nonbulky DNA Lesions Spiroiminodihydantoin and 5-Guanidinohydantoin Significantly Block Human RNA Polymerase II Elongation in Vitro.
Biochemistry (2017 Jun 20) PMC5872833 free full-text archive
Kolbanovskiy M, Chowdhury MA, Nadkarni A, Broyde S, Geacintov NE, Scicchitano DA, Shafirovich V - Nucleotide Excision Repair Lesion-Recognition Protein Rad4 Captures a Pre-Flipped Partner Base in a Benzo[a]pyrene-Derived DNA Lesion: How Structure Impacts the Binding Pathway.
Chem Res Toxicol (2017 Jun 19) PMC5478902 free full-text archive
Mu H, Geacintov NE, Min JH, 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) PMC5461660 free full-text archive
Fu I, Cai Y, Geacintov NE, Zhang Y, Broyde S - Bypass of DNA-Protein Cross-links Conjugated to the 7-Deazaguanine Position of DNA by Translesion Synthesis Polymerases.
J Biol Chem (2016 Nov 4) PMC5095413 free full-text archive
Wickramaratne S, Ji S, Mukherjee S, Su Y, Pence MG, Lior‑Hoffmann L, Fu I, Broyde S, Guengerich FP, Distefano M, Scharer OD, Sham YY, Tretyakova N - 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) PMC4721520 free full-text archive
Fu I, Cai Y, Zhang Y, Geacintov NE, Broyde S - Correction: Resistance to Nucleotide Excision Repair of Bulky Guanine Adducts Opposite Abasic Sites in DNA Duplexes and Relationships between Structure and Function.
PLoS One (2015) PMC4626036 free full-text archive
Liu Z, Ding S, Kropachev K, Jia L, Amin S, Broyde S, Geacintov NE - Resistance to Nucleotide Excision Repair of Bulky Guanine Adducts Opposite Abasic Sites in DNA Duplexes and Relationships between Structure and Function.
PLoS One (2015) PMC4560436 free full-text archive
Liu Z, Ding S, Kropachev K, Jia L, Amin S, Broyde S, Geacintov NE - Recognition of Damaged DNA for Nucleotide Excision Repair: A Correlated Motion Mechanism with a Mismatched cis-syn Thymine Dimer Lesion.
Biochemistry (2015 Sep 1) PMC4748833 free full-text archive
Mu H, Geacintov NE, Zhang Y, Broyde S - Differences in the Access of Lesions to the Nucleotide Excision Repair Machinery in Nucleosomes.
Biochemistry (2015 Jul 14) PMC4862310 free full-text archive
Cai Y, Kropachev K, Terzidis MA, Masi A, Chatgilialoglu C, Shafirovich V, Geacintov NE, Broyde S - Structural and dynamic characterization of polymerase kappa's minor groove lesion processing reveals how adduct topology impacts fidelity.
Biochemistry (2014 Sep 9) PMC4159208 free full-text archive
Lior‑Hoffmann L, Ding S, Geacintov NE, Zhang Y, Broyde S - The relationships between XPC binding to conformationally diverse DNA adducts and their excision by the human NER system: is there a correlation?
DNA Repair (Amst) (2014 Jul) PMC4070384 free full-text archive
Lee YC, Cai Y, Mu H, Broyde S, Amin S, Chen X, Min JH, Geacintov NE - Nuclear magnetic resonance studies of an N2-guanine adduct derived from the tumorigen dibenzo[a,l]pyrene in DNA: impact of adduct stereochemistry, size, and local DNA sequence on solution conformations.
Biochemistry (2014 Mar 25) PMC3985812 free full-text archive
Rodriguez FA, Liu Z, Lin CH, Ding S, Cai Y, Kolbanovskiy A, Kolbanovskiy M, Amin S, Broyde S, Geacintov NE - Structural basis for the recognition of diastereomeric 5',8-cyclo-2'-deoxypurine lesions by the human nucleotide excision repair system.
Nucleic Acids Res (2014 Apr) PMC4041128 free full-text archive
Kropachev K, Ding S, Terzidis MA, Masi A, Liu Z, Cai Y, Kolbanovskiy M, Chatgilialoglu C, Broyde S, Geacintov NE, Shafirovich V - Ribonucleotides as nucleotide excision repair substrates.
DNA Repair (Amst) (2014 Jan) PMC4371527 free full-text archive
Cai Y, Geacintov NE, Broyde S - Role of structural and energetic factors in regulating repair of a bulky DNA lesion with different opposite partner bases.
Biochemistry (2013 Aug 20) PMC3850756 free full-text archive
Mu H, Kropachev K, Chen Y, Zhang H, Cai Y, Geacintov NE, Broyde S - Free energy profiles of base flipping in intercalative polycyclic aromatic hydrocarbon-damaged DNA duplexes: energetic and structural relationships to nucleotide excision repair susceptibility.
Chem Res Toxicol (2013 Jul 15) PMC3865170 free full-text archive
Cai Y, Zheng H, Ding S, Kropachev K, Schwaid AG, Tang Y, Mu H, Wang S, Geacintov NE, Zhang Y, Broyde S - Adenine-DNA adducts derived from the highly tumorigenic Dibenzo[a,l]pyrene are resistant to nucleotide excision repair while guanine adducts are not.
Chem Res Toxicol (2013 May 20) PMC3676272 free full-text archive
Kropachev K, Kolbanovskiy M, Liu Z, Cai Y, Zhang L, Schwaid AG, Kolbanovskiy A, Ding S, Amin S, Broyde S, Geacintov NE - DNA cytosine methylation: structural and thermodynamic characterization of the epigenetic marking mechanism.
Biochemistry (2013 Apr 23) PMC3687104 free full-text archive
Yang J, Lior‑Hoffmann L, Wang S, Zhang Y, Broyde S - Nuclear magnetic resonance solution structure of an N(2)-guanine DNA adduct derived from the potent tumorigen dibenzo[a,l]pyrene: intercalation from the minor groove with ruptured Watson-Crick base pairing.
Biochemistry (2012 Dec 4) PMC3578312 free full-text archive
Tang Y, Liu Z, Ding S, Lin CH, Cai Y, Rodriguez FA, Sayer JM, Jerina DM, Amin S, Broyde S, Geacintov NE - Nucleotide excision repair of 2-acetylaminofluorene- and 2-aminofluorene-(C8)-guanine adducts: molecular dynamics simulations elucidate how lesion structure and base sequence context impact repair efficiencies.
Nucleic Acids Res (2012 Oct) PMC3479214 free full-text archive
Mu H, Kropachev K, Wang L, Zhang L, Kolbanovskiy A, Kolbanovskiy M, Geacintov NE, Broyde S - Preferred WMSA catalytic mechanism of the nucleotidyl transfer reaction in human DNA polymerase kappa elucidates error-free bypass of a bulky DNA lesion.
Nucleic Acids Res (2012 Oct) PMC3467051 free full-text archive
Lior‑Hoffmann L, Wang L, Wang S, Geacintov NE, Broyde S, Zhang Y - Nucleotide excision repair efficiencies of bulky carcinogen-DNA adducts are governed by a balance between stabilizing and destabilizing interactions.
Biochemistry (2012 Feb 21) PMC3292408 free full-text archive
Cai Y, Geacintov NE, Broyde S - Structural, energetic and dynamic properties of guanine(C8)-thymine(N3) cross-links in DNA provide insights on susceptibility to nucleotide excision repair.
Nucleic Acids Res (2012 Mar) PMC3315297 free full-text archive
Ding S, Kropachev K, Cai Y, Kolbanovskiy M, Durandina SA, Liu Z, Shafirovich V, Broyde S, Geacintov NE - Resistance of bulky DNA lesions to nucleotide excision repair can result from extensive aromatic lesion-base stacking interactions.
Nucleic Acids Res (2011 Nov 1) PMC3203604 free full-text archive
Reeves DA, Mu H, Kropachev K, Cai Y, Ding S, Kolbanovskiy A, Kolbanovskiy M, Chen Y, Krzeminski J, Amin S, Patel DJ, Broyde S, Geacintov NE - Probing for DNA damage with beta-hairpins: similarities in incision efficiencies of bulky DNA adducts by prokaryotic and human nucleotide excision repair systems in vitro.
DNA Repair (Amst) (2011 Jul 15) PMC3212938 free full-text archive
Liu Y, Reeves D, Kropachev K, Cai Y, Ding S, Kolbanovskiy M, Kolbanovskiy A, Bolton JL, Broyde S, Van Houten B, Geacintov NE - Intercalative conformations of the 14R (+)- and 14S (-)-trans-anti-DB[a,l]P-N(6)-dA adducts: molecular modeling and MD simulations.
Chem Res Toxicol (2011 Apr 18) PMC3079767 free full-text archive
Cai Y, Ding S, Geacintov NE, Broyde S - DNA damage, mutagenesis, and DNA repair.
J Nucleic Acids (2010 Dec 27) PMC3014688 free full-text archive
Basu A, Broyde S, Iwai S, Kisker C - Base flipping free energy profiles for damaged and undamaged DNA.
Chem Res Toxicol (2010 Dec 20) PMC3071897 free full-text archive
Zheng H, Cai Y, Ding S, Tang Y, Kropachev K, Zhou Y, Wang L, Wang S, Geacintov NE, Zhang Y, Broyde S - A bulky DNA lesion derived from a highly potent polycyclic aromatic tumorigen stabilizes nucleosome core particle structure.
Biochemistry (2010 Nov 23) PMC2990886 free full-text archive
Cai Y, Wang L, Ding S, Schwaid A, Geacintov NE, Broyde S - Base sequence context effects on nucleotide excision repair.
J Nucleic Acids (2010 Aug 23) PMC2943111 free full-text archive
Cai Y, Patel DJ, Broyde S, Geacintov NE - DNA repair: How to accurately bypass damage.
Nature (2010 Jun 24) PMC4986998 free full-text archive
Broyde S, Patel DJ - Distant neighbor base sequence context effects in human nucleotide excision repair of a benzo[a]pyrene-derived DNA lesion.
J Mol Biol (2010 Jun 11) PMC2923096 free full-text archive
Cai Y, Kropachev K, Xu R, Tang Y, Kolbanovskii M, Kolbanovskii A, Amin S, Patel DJ, Broyde S, Geacintov NE - Mechanism of error-free and semitargeted mutagenic bypass of an aromatic amine lesion by Y-family polymerase Dpo4.
Nat Struct Mol Biol (2010 Mar) PMC4215948 free full-text archive
Rechkoblit O, Kolbanovskiy A, Malinina L, Geacintov NE, Broyde S, Patel DJ - Absolute configurations of DNA lesions determined by comparisons of experimental ECD and ORD spectra with DFT calculations.
Chirality (2009) PMC4033673 free full-text archive
Ding S, Kolbanovskiy A, Durandin A, Crean C, Shafirovich V, Broyde S, Geacintov NE - Influence of local sequence context on damaged base conformation in human DNA polymerase iota: molecular dynamics studies of nucleotide incorporation opposite a benzo[a]pyrene-derived adenine lesion.
Nucleic Acids Res (2009 Nov) PMC2790882 free full-text archive
Donny‑Clark K, Broyde S - Exploring damage recognition models in prokaryotic nucleotide excision repair with a benzo[a]pyrene-derived lesion in UvrB.
Biochemistry (2009 Sep 29) PMC2971694 free full-text archive
Jia L, Kropachev K, Ding S, Van Houten B, Geacintov NE, Broyde S - NMR and computational studies of stereoisomeric equine estrogen-derived DNA cytidine adducts in oligonucleotide duplexes: opposite orientations of diastereomeric forms.
Biochemistry (2009 Aug 4) PMC2916639 free full-text archive
Zhang N, Ding S, Kolbanovskiy A, Shastry A, Kuzmin VA, Bolton JL, Patel DJ, Broyde S, Geacintov NE - Absolute configurations of spiroiminodihydantoin and allantoin stereoisomers: comparison of computed and measured electronic circular dichroism spectra.
Chem Res Toxicol (2009 Jun) PMC4030679 free full-text archive
Ding S, Jia L, Durandin A, Crean C, Kolbanovskiy A, Shafirovich V, Broyde S, Geacintov NE - Impact of conformational heterogeneity of OxoG lesions and their pairing partners on bypass fidelity by Y family polymerases.
Structure (2009 May 13) PMC4193663 free full-text archive
Rechkoblit O, Malinina L, Cheng Y, Geacintov NE, Broyde S, Patel DJ - Polymerase-tailored variations in the water-mediated and substrate-assisted mechanism for nucleotidyl transfer: insights from a study of T7 DNA polymerase.
J Mol Biol (2009 Jun 19) PMC2801548 free full-text archive
Wang L, Broyde S, Zhang Y - Visualizing sequence-governed nucleotide selectivities and mutagenic consequences through a replicative cycle: processing of a bulky carcinogen N2-dG lesion in a Y-family DNA polymerase.
Biochemistry (2009 Jun 9) PMC2929011 free full-text archive
Xu P, Oum L, Lee YC, Geacintov NE, Broyde S - The sequence dependence of human nucleotide excision repair efficiencies of benzo[a]pyrene-derived DNA lesions: insights into the structural factors that favor dual incisions.
J Mol Biol (2009 Mar 13) PMC2717896 free full-text archive
Kropachev K, Kolbanovskii M, Cai Y, Rodriguez F, Kolbanovskii A, Liu Y, Zhang L, Amin S, Patel D, Broyde S, Geacintov NE - Accommodation of an N-(deoxyguanosin-8-yl)-2-acetylaminofluorene adduct in the active site of human DNA polymerase iota: Hoogsteen or Watson-Crick base pairing?
Biochemistry (2009 Jan 13) PMC2631237 free full-text archive
Donny‑Clark K, Shapiro R, Broyde S - Differential nucleotide excision repair susceptibility of bulky DNA adducts in different sequence contexts: hierarchies of recognition signals.
J Mol Biol (2009 Jan 9) PMC2680230 free full-text archive
Cai Y, Patel DJ, Geacintov NE, Broyde S - The N-clasp of human DNA polymerase kappa promotes blockage or error-free bypass of adenine- or guanine-benzo[a]pyrenyl lesions.
Nucleic Acids Res (2008 Nov) PMC2582633 free full-text archive
Jia L, Geacintov NE, Broyde S - Transcription elongation past O6-methylguanine by human RNA polymerase II and bacteriophage T7 RNA polymerase.
Nucleic Acids Res (2008 Nov) PMC2582612 free full-text archive
Dimitri A, Burns JA, Broyde S, Scicchitano DA - Determination of absolute configurations of 4-hydroxyequilenin-cytosine and -adenine adducts by optical rotatory dispersion, electronic circular dichroism, density functional theory calculations, and mass spectrometry.
Chem Res Toxicol (2008 Sep) PMC2574695 free full-text archive
Ding S, Wang Y, Kolbanovskiy A, Durandin A, Bolton JL, van Breemen RB, Broyde S, Geacintov NE - Transcription of DNA containing the 5-guanidino-4-nitroimidazole lesion by human RNA polymerase II and bacteriophage T7 RNA polymerase.
DNA Repair (Amst) (2008 Aug 2) PMC2572817 free full-text archive
Dimitri A, Jia L, Shafirovich V, Geacintov NE, Broyde S, Scicchitano DA - Conformational properties of equilenin-DNA adducts: stereoisomer and base effects.
Chem Res Toxicol (2008 May) PMC2597795 free full-text archive
Ding S, Shapiro R, Cai Y, Geacintov NE, Broyde S - Lesion processing: high-fidelity versus lesion-bypass DNA polymerases.
Trends Biochem Sci (2008 May) PMC2717799 free full-text archive
Broyde S, Wang L, Rechkoblit O, Geacintov NE, Patel DJ - Nucleotide selectivity opposite a benzo[a]pyrene-derived N2-dG adduct in a Y-family DNA polymerase: a 5'-slippage mechanism.
Biochemistry (2008 Mar 4) PMID: 18260644
Xu P, Oum L, Geacintov NE, Broyde S - DNA adduct structure-function relationships: comparing solution with polymerase structures.
Chem Res Toxicol (2008 Jan) PMC4692375 free full-text archive
Broyde S, Wang L, Zhang L, Rechkoblit O, Geacintov NE, Patel DJ - Transcription processing at 1,N2-ethenoguanine by human RNA polymerase II and bacteriophage T7 RNA polymerase.
J Mol Biol (2008 Jan 11) PMC2262288 free full-text archive
Dimitri A, Goodenough AK, Guengerich FP, Broyde S, Scicchitano DA - Dynamics of a benzo[a]pyrene-derived guanine DNA lesion in TGT and CGC sequence contexts: enhanced mobility in TGT explains conformational heterogeneity, flexible bending, and greater susceptibility to nucleotide excision repair.
J Mol Biol (2007 Nov 23) PMC4693642 free full-text archive
Cai Y, Patel DJ, Geacintov NE, Broyde S - Following an environmental carcinogen N2-dG adduct through replication: elucidating blockage and bypass in a high-fidelity DNA polymerase.
Nucleic Acids Res (2007) PMC1934992 free full-text archive
Xu P, Oum L, Beese LS, Geacintov NE, Broyde S - The human DNA repair factor XPC-HR23B distinguishes stereoisomeric benzo[a]pyrenyl-DNA lesions.
EMBO J (2007 Jun 20) PMC1894768 free full-text archive
Mocquet V, Kropachev K, Kolbanovskiy M, Kolbanovskiy A, Tapias A, Cai Y, Broyde S, Geacintov NE, Egly JM - Lesion specificity in the base excision repair enzyme hNeil1: modeling and dynamics studies.
Biochemistry (2007 May 8) PMC2527061 free full-text archive
Jia L, Shafirovich V, Geacintov NE, Broyde S - A water-mediated and substrate-assisted catalytic mechanism for Sulfolobus solfataricus DNA polymerase IV.
J Am Chem Soc (2007 Apr 18) PMC2519035 free full-text archive
Wang L, Yu X, Hu P, Broyde S, Zhang Y - Exocyclic amino groups of flanking guanines govern sequence-dependent adduct conformations and local structural distortions for minor groove-aligned benzo[a]pyrenyl-guanine lesions in a GG mutation hotspot context.
Nucleic Acids Res (2007) PMC1865068 free full-text archive
Rodriguez FA, Cai Y, Lin C, Tang Y, Kolbanovskiy A, Amin S, Patel DJ, Broyde S, Geacintov NE - 4-hydroxyequilenin-adenine lesions in DNA duplexes: stereochemistry, damage site, and structure.
Biochemistry (2007 Jan 9) PMC2582198 free full-text archive
Ding S, Shapiro R, Geacintov NE, Broyde S - Increased flexibility enhances misincorporation: temperature effects on nucleotide incorporation opposite a bulky carcinogen-DNA adduct by a Y-family DNA polymerase.
J Biol Chem (2007 Jan 12) PMID: 17090533
Perlow‑Poehnelt RA, Likhterov I, Wang L, Scicchitano DA, Geacintov NE, Broyde S - Assignment of absolute configurations of the enantiomeric spiroiminodihydantoin nucleobases by experimental and computational optical rotatory dispersion methods.
Chem Res Toxicol (2006 Jul) PMID: 16841958
Durandin A, Jia L, Crean C, Kolbanovskiy A, Ding S, Shafirovich V, Broyde S, Geacintov NE - Mutagenic nucleotide incorporation and hindered translocation by a food carcinogen C8-dG adduct in Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4): modeling and dynamics studies.
Nucleic Acids Res (2006) PMC1500869 free full-text archive
Zhang L, Rechkoblit O, Wang L, Patel DJ, Shapiro R, Broyde S - Flexible 5-guanidino-4-nitroimidazole DNA lesions: structures and thermodynamics.
Biochemistry (2006 May 30) PMC2527740 free full-text archive
Jia L, Shafirovich V, Shapiro R, Geacintov NE, Broyde S - A new anti conformation for N-(deoxyguanosin-8-yl)-2-acetylaminofluorene (AAF-dG) allows Watson-Crick pairing in the Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4).
Nucleic Acids Res (2006) PMC1360743 free full-text archive
Wang L, Broyde S - Stepwise translocation of Dpo4 polymerase during error-free bypass of an oxoG lesion.
PLoS Biol (2006 Jan) PMC1325099 free full-text archive
Rechkoblit O, Malinina L, Cheng Y, Kuryavyi V, Broyde S, Geacintov NE, Patel DJ - Equilenin-derived DNA adducts to cytosine in DNA duplexes: structures and thermodynamics.
Biochemistry (2005 Nov 8) PMID: 16262256
Ding S, Shapiro R, Geacintov NE, Broyde S - Structural and thermodynamic features of spiroiminodihydantoin damaged DNA duplexes.
Biochemistry (2005 Oct 11) PMID: 16201759
Jia L, Shafirovich V, Shapiro R, Geacintov NE, Broyde S - Molecular dynamics of a food carcinogen-DNA adduct in a replicative DNA polymerase suggest hindered nucleotide incorporation and extension.
Chem Res Toxicol (2005 Sep) PMID: 16167826
Zhang L, Shapiro R, Broyde S - Spiroiminodihydantoin lesions derived from guanine oxidation: structures, energetics, and functional implications.
Biochemistry (2005 Apr 26) PMID: 15835893
Jia L, Shafirovich V, Shapiro R, Geacintov NE, Broyde S - Accommodation of a 1S-(-)-benzo[c]phenanthrenyl-N6-dA adduct in the Y-family Dpo4 DNA polymerase active site: structural insights through molecular dynamics simulations.
Chem Res Toxicol (2005 Mar) PMC4696753 free full-text archive
Wang L, Wu M, Yan SF, Patel DJ, Geacintov NE, Broyde S - Methylation of cytosine at C5 in a CpG sequence context causes a conformational switch of a benzo[a]pyrene diol epoxide-N2-guanine adduct in DNA from a minor groove alignment to intercalation with base displacement.
J Mol Biol (2005 Mar 4) PMC4694590 free full-text archive
Zhang N, Lin C, Huang X, Kolbanovskiy A, Hingerty BE, Amin S, Broyde S, Geacintov NE, Patel DJ - Substrate discrimination by formamidopyrimidine-DNA glycosylase: distinguishing interactions within the active site.
Biochemistry (2004 Dec 28) PMID: 15610004
Perlow‑Poehnelt RA, Zharkov DO, Grollman AP, Broyde S - Conformational searches elucidate effects of stereochemistry on structures of deoxyadenosine covalently bound to tumorigenic metabolites of benzo[C] phenanthrene.
Front Biosci (2004 Sep 1) PMC4697942 free full-text archive
Wu M, Yan SF, Tan J, Patel DJ, Geacintov NE, Broyde S - Deformations of promoter DNA bound to carcinogens help interpret effects on TATA-element structure and activity.
Philos Trans A Math Phys Eng Sci (2004 Jul 15) PMID: 15306462
Zhang Q, Broyde S, Schlick T - The spacious active site of a Y-family DNA polymerase facilitates promiscuous nucleotide incorporation opposite a bulky carcinogen-DNA adduct: elucidating the structure-function relationship through experimental and computational approaches.
J Biol Chem (2004 Aug 27) PMID: 15210693
Perlow‑Poehnelt RA, Likhterov I, Scicchitano DA, Geacintov NE, Broyde S - Altering DNA polymerase incorporation fidelity by distorting the dNTP binding pocket with a bulky carcinogen-damaged template.
Biochemistry (2004 Jun 22) PMID: 15196018
Yan SF, Wu M, Geacintov NE, Broyde S - Highly organized but pliant active site of DNA polymerase beta: compensatory mechanisms in mutant enzymes revealed by dynamics simulations and energy analyses.
Biophys J (2004 Jun) PMC1304247 free full-text archive
Yang L, Beard WA, Wilson SH, Broyde S, Schlick T - Structural and stereoisomer effects of model estrogen quinone-derived DNA adducts: N6-(2-hydroxyestron-6(alpha,beta)-yl)-2'-deoxyadenosine and N2-(2-hydroxyestron-6(alpha,beta)-yl)-2'-deoxyguanosine.
Chem Res Toxicol (2004 Mar) PMID: 15025501
Wang L, Hingerty BE, Shapiro R, Broyde S - Solution structure of an O6-[4-oxo-4-(3-pyridyl)butyl]guanine adduct in an 11 mer DNA duplex: evidence for formation of a base triplex.
Biochemistry (2003 Nov 18) PMID: 14609323
Peterson LA, Vu C, Hingerty BE, Broyde S, Cosman M - Substrate discrimination by formamidopyrimidine-DNA glycosylase: a mutational analysis.
J Biol Chem (2004 Feb 6) PMID: 14607836
Zaika EI, Perlow RA, Matz E, Broyde S, Gilboa R, Grollman AP, Zharkov DO - Human RNA polymerase II is partially blocked by DNA adducts derived from tumorigenic benzo[c]phenanthrene diol epoxides: relating biological consequences to conformational preferences.
Nucleic Acids Res (2003 Oct 15) PMC219463 free full-text archive
Schinecker TM, Perlow RA, Broyde S, Geacintov NE, Scicchitano DA - Conformations of stereoisomeric base adducts to 4-hydroxyequilenin.
Chem Res Toxicol (2003 Jun) PMID: 12807352
Ding S, Shapiro R, Geacintov NE, Broyde S - Simulating structural and thermodynamic properties of carcinogen-damaged DNA.
Biophys J (2003 Apr) PMC1302781 free full-text archive
Yan S, Wu M, Patel DJ, Geacintov NE, Broyde S - Extending the understanding of mutagenicity: structural insights into primer-extension past a benzo[a]pyrene diol epoxide-DNA adduct.
J Mol Biol (2003 Apr 4) PMID: 12654264
Perlow RA, Broyde S - Role of base sequence context in conformational equilibria and nucleotide excision repair of benzo[a]pyrene diol epoxide-adenine adducts.
Biochemistry (2003 Mar 4) PMID: 12600201
Yan S, Wu M, Buterin T, Naegeli H, Geacintov NE, Broyde S - Comparative mutagenesis of the C8-guanine adducts of 1-nitropyrene and 1,6- and 1,8-dinitropyrene in a CpG repeat sequence. A slipped frameshift intermediate model for dinucleotide deletion.
J Biol Chem (2002 Nov 22) PMID: 12239219
Hilario P, Yan S, Hingerty BE, Broyde S, Basu AK - Thermodynamic and structural factors in the removal of bulky DNA adducts by the nucleotide excision repair machinery.
Biopolymers (2002 Nov 5) PMID: 12228925
Geacintov NE, Broyde S, Buterin T, Naegeli H, Wu M, Yan S, Patel DJ - Toward understanding the mutagenicity of an environmental carcinogen: structural insights into nucleotide incorporation preferences.
J Mol Biol (2002 Sep 13) PMID: 12217692
Perlow RA, Broyde S - Local deformations revealed by dynamics simulations of DNA polymerase Beta with DNA mismatches at the primer terminus.
J Mol Biol (2002 Aug 16) PMID: 12162959
Yang L, Beard W, Wilson S, Roux B, Broyde S, Schlick T - Relating repair susceptibility of carcinogen-damaged DNA with structural distortion and thermodynamic stability.
Nucleic Acids Res (2002 Aug 1) PMC137070 free full-text archive
Wu M, Yan S, Patel DJ, Geacintov NE, Broyde S - DNA adducts from a tumorigenic metabolite of benzo[a]pyrene block human RNA polymerase II elongation in a sequence- and stereochemistry-dependent manner.
J Mol Biol (2002 Aug 2) PMID: 12139931
Perlow RA, Kolbanovskii A, Hingerty BE, Geacintov NE, Broyde S, Scicchitano DA - Accurate representation of B-DNA double helical structure with implicit solvent and counterions.
Biophys J (2002 Jul) PMC1302155 free full-text archive
Wang L, Hingerty BE, Srinivasan AR, Olson WK, Broyde S - Conformational analysis of a 4-hydroxyequilenin Guanine adduct using density functional theory.
Chem Res Toxicol (2002 May) PMID: 12018985
Yan S, Wu M, Ding S, Geacintov NE, Broyde S - Polymerase beta simulations suggest that Arg258 rotation is a slow step rather than large subdomain motions per se.
J Mol Biol (2002 Apr 12) PMID: 11955015
Yang L, Beard WA, Wilson SH, Broyde S, Schlick T - Cyclohexene ring and Fjord region twist inversion in stereoisomeric DNA adducts of enantiomeric benzo[c]phenanthrene diol epoxides.
Chem Res Toxicol (2001 Dec) PMID: 11743746
Wu M, Yan S, Patel DJ, Geacintov NE, Broyde S - Base sequence effects in bending induced by bulky carcinogen-DNA adducts: experimental and computational analysis.
Biochemistry (2001 Sep 4) PMID: 11523987
Ruan Q, Zhuang P, Li S, Perlow R, Srinivasan AR, Lu XJ, Broyde S, Olson WK, Geacintov NE - Stereochemical, structural, and thermodynamic origins of stability differences between stereoisomeric benzo[a]pyrene diol epoxide deoxyadenosine adducts in a DNA mutational hot spot sequence.
J Am Chem Soc (2001 Jul 25) PMID: 11459484
Yan S, Shapiro R, Geacintov NE, Broyde S - Solution structure of the 2-amino-1- methyl-6-phenylimidazo[4,5-b]pyridine C8-deoxyguanosine adduct in duplex DNA.
Proc Natl Acad Sci U S A (2001 Jul 17) PMC37466 free full-text archive
Brown K, Hingerty BE, Guenther EA, Krishnan VV, Broyde S, Turteltaub KW, Cosman M - Evading the proofreading machinery of a replicative DNA polymerase: induction of a mutation by an environmental carcinogen.
J Mol Biol (2001 Jun 1) PMID: 11371169
Perlow RA, Broyde S - The food mutagen 2-amino-3,8-dimethylimidazo[4,5-f]quinoxaline: a conformational analysis of its major DNA adduct and comparison with the 2-amino-3-methylimidazo[4,5-f]quinoline adduct.
Chem Res Toxicol (2001 May) PMID: 11368544
Gauvin J, Broyde S, Shapiro R - Molecular topology of polycyclic aromatic carcinogens determines DNA adduct conformation: a link to tumorigenic activity.
J Mol Biol (2001 Mar 9) PMID: 11237618
Lin CH, Huang X, Kolbanovskii A, Hingerty BE, Amin S, Broyde S, Geacintov NE, Patel DJ - Conformational determinants of structures in stereoisomeric cis-opened anti-benzo[a]pyrene diol epoxide adducts to adenine in DNA.
Chem Res Toxicol (2000 Sep) PMID: 10995253
Tan J, Geacintov NE, Broyde S - Accomodation of S-cis-tamoxifen-N(2)-guanine adduct within a bent and widened DNA minor groove.
J Mol Biol (2000 Sep 15) PMID: 10970740
Shimotakahara S, Gorin A, Kolbanovskiy A, Kettani A, Hingerty BE, Amin S, Broyde S, Geacintov N, Patel DJ - Conformational analysis of the major DNA adduct derived from the food mutagen 2-amino-3-methylimidazo[4,5-f]quinoline.
Chem Res Toxicol (1999 Oct) PMID: 10525264
Wu X, Shapiro R, Broyde S - Solution structures of aminofluorene [AF]-stacked conformers of the syn [AF]-C8-dG adduct positioned opposite dC or dA at a template-primer junction.
Biochemistry (1999 Aug 17) PMID: 10451382
Gu Z, Gorin A, Hingerty BE, Broyde S, Patel DJ - Solution structure of the N-(deoxyguanosin-8-yl)-1-aminopyrene ([AP]dG) adduct opposite dA in a DNA duplex.
Biochemistry (1999 Aug 17) PMID: 10451381
Gu Z, Gorin A, Krishnasamy R, Hingerty BE, Basu AK, Broyde S, Patel DJ - Solution structure of the (+)-cis-anti-benzo[a]pyrene-dA ([BP]dA) adduct opposite dT in a DNA duplex.
Biochemistry (1999 Aug 17) PMID: 10451380
Mao B, Gu Z, Gorin A, Chen J, Hingerty BE, Amin S, Broyde S, Geacintov NE, Patel DJ - Origins of conformational differences between cis and trans DNA adducts derived from enantiomeric anti-benzo[a]pyrene diol epoxides.
Chem Res Toxicol (1999 Jul) PMID: 10409399
Xie XM, Geacintov NE, Broyde S - Stereochemical origin of opposite orientations in DNA adducts derived from enantiomeric anti-benzo[a]pyrene diol epoxides with different tumorigenic potentials.
Biochemistry (1999 Mar 9) PMID: 10074348
Xie XM, Geacintov NE, Broyde S - A slipped replication intermediate model is stabilized by the syn orientation of N-2-aminofluorene- and N-2-(acetyl)aminofluorene-modified guanine at a mutational hotspot.
Chem Res Toxicol (1998 Nov) PMID: 9815190
Roy D, Hingerty BE, Shapiro R, Broyde S - Nuclear magnetic resonance solution structures of covalent aromatic amine-DNA adducts and their mutagenic relevance.
Chem Res Toxicol (1998 May) PMID: 9585469
Patel DJ, Mao B, Gu Z, Hingerty BE, Gorin A, Basu AK, Broyde S - Effect of ring size on conformations of aromatic amine-DNA adducts: the aniline-C8 guanine adduct resides in the B-DNA major groove.
Chem Res Toxicol (1998 Apr) PMID: 9548804
Shapiro R, Ellis S, Hingerty BE, Broyde S - A molecular mechanics and dynamics study of the minor adduct between DNA and the carcinogen 2-(acetylamino)fluorene (dG-N2-AAF).
Chem Res Toxicol (1997 Oct) PMID: 9348435
Grad R, Shapiro R, Hingerty BE, Broyde S - Interactions between DNA polymerase beta and the major covalent adduct of the carcinogen (+)-anti-benzo[a]pyrene diol epoxide with DNA at a primer-template junction.
Biochemistry (1998 Jan 20) PMID: 9454577
Singh SB, Beard WA, Hingerty BE, Wilson SH, Broyde S - Solution structure of the aminofluorene [AF]-external conformer of the anti-[AF]-C8-dG adduct opposite dC in a DNA duplex.
Biochemistry (1998 Jan 6) PMID: 9425029
Mao B, Hingerty BE, Broyde S, Patel DJ - Solution structure of the aminofluorene [AF]-intercalated conformer of the syn-[AF]-C8-dG adduct opposite dC in a DNA duplex.
Biochemistry (1998 Jan 6) PMID: 9425028
Mao B, Hingerty BE, Broyde S, Patel DJ - Solution conformation of the (-)-trans-anti-[BP]dG adduct opposite a deletion site in a DNA duplex: intercalation of the covalently attached benzo[a]pyrene into the helix with base displacement of the modified deoxyguanosine into the minor groove.
Biochemistry (1997 Nov 11) PMID: 9374854
Feng B, Gorin A, Kolbanovskiy A, Hingerty BE, Geacintov NE, Broyde S, Patel DJ - Structural alignment of the (+)-trans-anti-benzo[a]pyrene-dG adduct positioned opposite dC at a DNA template-primer junction.
Biochemistry (1997 Nov 11) PMID: 9374853
Feng B, Gorin A, Hingerty BE, Geacintov NE, Broyde S, Patel DJ - Solution structure of the aminofluorene-stacked conformer of the syn [AF]-C8-dG adduct positioned at a template-primer junction.
Biochemistry (1997 Nov 25) PMID: 9398168
Mao B, Gu Z, Gorin A, Hingerty BE, Broyde S, Patel DJ - Solution structure of the aminofluorene-intercalated conformer of the syn [AF]-C8-dG adduct opposite a--2 deletion site in the NarI hot spot sequence context.
Biochemistry (1997 Nov 25) PMID: 9398167
Mao B, Gorin A, Gu Z, Hingerty BE, Broyde S, Patel DJ - NMR solution structures of stereoisometric covalent polycyclic aromatic carcinogen-DNA adduct: principles, patterns, and diversity.
Chem Res Toxicol (1997 Feb) PMID: 9049424
Geacintov NE, Cosman M, Hingerty BE, Amin S, Broyde S, Patel DJ - Solution conformation of the N-(deoxyguanosin-8-yl)-1-aminopyrene ([AP]dG) adduct opposite dC in a DNA duplex.
Biochemistry (1996 Oct 1) PMID: 8841109
Mao B, Vyas RR, Hingerty BE, Broyde S, Basu AK, Patel DJ - Solution conformation of the (-)-cis-anti-benzo[a]pyrenyl-dG adduct opposite dC in a DNA duplex: intercalation of the covalently attached BP ring into the helix with base displacement of the modified deoxyguanosine into the major groove.
Biochemistry (1996 Jul 30) PMID: 8703959
Cosman M, Hingerty BE, Luneva N, Amin S, Geacintov NE, Broyde S, Patel DJ - Setting the stage for predicting RNA thermodynamic properties and their structural components.
Biophys J (1996 Apr) PMC1225125 free full-text archive
Broyde S - Solution properties and computational analysis of an oligodeoxynucleotide containing N-(deoxyguanosin-8-yl)-1-aminopyrene.
Carcinogenesis (1996 Jan) PMID: 8565123
Nolan SJ, Vyas RR, Hingerty BE, Ellis S, Broyde S, Shapiro R, Basu AK - Solution conformation of [AF]dG opposite a -2 deletion site in a DNA duplex: intercalation of the covalently attached aminofluorene ring into the helix with base displacement of the C8-modified syn guanine and adjacent unpaired 3'-adenine into the major groove.
Biochemistry (1995 Dec 26) PMID: 8527437
Mao B, Hingerty BE, Broyde S, Patel DJ - Structural alignments of (+)- and (-)-trans-anti-benzo[a]pyrene-dG adducts positioned at a DNA template-primer junction.
Biochemistry (1995 Nov 21) PMID: 7578150
Cosman M, Hingerty BE, Geacintov NE, Broyde S, Patel DJ - Solution conformation of the (-)-trans-anti-5-methylchrysene-dG adduct opposite dC in a DNA duplex: DNA bending associated with wedging of the methyl group of 5-methylchrysene to the 3'-side of the modification site.
Biochemistry (1995 May 9) PMID: 7742330
Cosman M, Xu R, Hingerty BE, Amin S, Harvey RG, Geacintov NE, Broyde S, Patel DJ - Solution conformation of [AF]dG opposite a -1 deletion site in a DNA duplex: intercalation of the covalently attached aminofluorene ring into the helix with base displacement of the C8-modified Syn guanine into the major groove.
Biochemistry (1995 May 9) PMID: 7742328
Mao B, Cosman M, Hingerty BE, Broyde S, Patel DJ - Solution conformation of the N-(deoxyguanosin-8-yl)aminofluorene adduct opposite deoxyinosine and deoxyguanosine in DNA by NMR and computational characterization.
Chem Res Toxicol (1995 Apr-May) PMID: 7578923
Abuaf P, Hingerty BE, Broyde S, Grunberger D - Solution conformation of the (-)-trans-anti-benzo[c]phenanthrene-dA ([BPh]dA) adduct opposite dT in a DNA duplex: intercalation of the covalently attached benzo[c]phenanthrenyl ring to the 3'-side of the adduct site and comparison with the (+)-trans-anti-[BPh]dA opposite dT stereoisomer.
Biochemistry (1995 Jan 31) PMID: 7827077
Cosman M, Laryea A, Fiala R, Hingerty BE, Amin S, Geacintov NE, Broyde S, Patel DJ - Major and minor groove conformations of DNA trimers modified on guanine or adenine by 4-aminobiphenyl: adenine adducts favor the minor groove.
Chem Res Toxicol (1995 Jan-Feb) PMID: 7703355
Shapiro R, Ellis S, Hingerty BE, Broyde S - Solution conformation of the (+)-cis-anti-[BP]dG adduct opposite a deletion site in a DNA duplex: intercalation of the covalently attached benzo[a]pyrene into the helix with base displacement of the modified deoxyguanosine into the minor groove.
Biochemistry (1994 Sep 27) PMID: 7918365
Cosman M, Fiala R, Hingerty BE, Amin S, Geacintov NE, Broyde S, Patel DJ - Solution conformation of the (+)-trans-anti-[BP]dG adduct opposite a deletion site in a DNA duplex: intercalation of the covalently attached benzo[a]pyrene into the helix with base displacement of the modified deoxyguanosine into the major groove.
Biochemistry (1994 Sep 27) PMID: 7918364
Cosman M, Fiala R, Hingerty BE, Amin S, Geacintov NE, Broyde S, Patel DJ - Molecular dynamics simulation of a tumorigenic benzo[a]pyrene metabolite bound to DNA at a single strand-double strand junction.
Ann N Y Acad Sci (1994 Jul 29) PMID: 8092708
Singh SB, Li B, Hingerty BE, Shapiro R, Broyde S - Conformation of amine-modified DNA: 2-aminofluorene- and 2-(acetylamino)fluorene-modified deoxydinucleoside monophosphates with all possible nearest neighbors. A comparison of search and optimization methods.
Chem Res Toxicol (1994 Mar-Apr) PMID: 8199314
Shapiro R, Sidawi D, Miao YS, Hingerty BE, Schmidt KE, Moskowitz J, Broyde S - Mutation and repair induced by the carcinogen 2-(hydroxyamino)-1-methyl-6-phenylimidazo[4,5-b]pyridine (N-OH-PhIP) in the dihydrofolate reductase gene of Chinese hamster ovary cells and conformational modeling of the dG-C8-PhIP adduct in DNA.
Chem Res Toxicol (1994 Mar-Apr) PMID: 8199311
Carothers AM, Yuan W, Hingerty BE, Broyde S, Grunberger D, Snyderwine EG - Solution conformation of the (+)-trans-anti-[BPh]dA adduct opposite dT in a DNA duplex: intercalation of the covalently attached benzo[c]phenanthrene to the 5'-side of the adduct site without disruption of the modified base pair.
Biochemistry (1993 Nov 23) PMID: 8241140
Cosman M, Fiala R, Hingerty BE, Laryea A, Lee H, Harvey RG, Amin S, Geacintov NE, Broyde S, Patel D - Solution conformation of the (+)-cis-anti-[BP]dG adduct in a DNA duplex: intercalation of the covalently attached benzo[a]pyrenyl ring into the helix and displacement of the modified deoxyguanosine.
Biochemistry (1993 Apr 27) PMID: 8476845
Cosman M, de los Santos C, Fiala R, Hingerty BE, Ibanez V, Luna E, Harvey R, Geacintov NE, Broyde S, Patel DJ - Structural characterization of an N-acetyl-2-aminofluorene (AAF) modified DNA oligomer by NMR, energy minimization, and molecular dynamics.
Biochemistry (1993 Mar 16) PMID: 8448107
O'Handley SF, Sanford DG, Xu R, Lester CC, Hingerty BE, Broyde S, Krugh TR - Influence of benzo[a]pyrene diol epoxide chirality on solution conformations of DNA covalent adducts: the (-)-trans-anti-[BP]G.C adduct structure and comparison with the (+)-trans-anti-[BP]G.C enantiomer.
Biochemistry (1992 Jun 16) PMID: 1606148
de los Santos C, Cosman M, Hingerty BE, Ibanez V, Margulis LA, Geacintov NE, Broyde S, Patel DJ - Solution conformation of the major adduct between the carcinogen (+)-anti-benzo[a]pyrene diol epoxide and DNA.
Proc Natl Acad Sci U S A (1992 Mar 1) PMC48564 free full-text archive
Cosman M, de los Santos C, Fiala R, Hingerty BE, Singh SB, Ibanez V, Margulis LA, Live D, Geacintov NE, Broyde S, et al. - Structures of the (+)- and (-)-trans-7,8-dihydroxy-anti-9,10-epoxy-7,8,9,10-tetrahydrobenzo(a)pyre ne adducts to guanine-N2 in a duplex dodecamer.
Cancer Res (1991 Jul 1) PMID: 1905197
Singh SB, Hingerty BE, Singh UC, Greenberg JP, Geacintov NE, Broyde S - NMR and computational characterization of mitomycin cross-linked to adjacent deoxyguanosines in the minor groove of the d(T-A-C-G-T-A).d(T-A-C-G-T-A) duplex.
Biochemistry (1990 Mar 20) PMID: 2346750
Norman D, Live D, Sastry M, Lipman R, Hingerty BE, Tomasz M, Broyde S, Patel DJ - Minor-groove binding models for acetylaminofluorene modified DNA.
J Biomol Struct Dyn (1989 Dec) PMID: 2627297
Shapiro R, Hingerty BE, Broyde S - NMR and computational characterization of the N-(deoxyguanosin-8-yl)aminofluorene adduct [(AF)G] opposite adenosine in DNA: (AF)G[syn].A[anti] pair formation and its pH dependence.
Biochemistry (1989 Sep 5) PMID: 2819081
Norman D, Abuaf P, Hingerty BE, Live D, Grunberger D, Broyde S, Patel DJ - Prediction of DNA structure from sequence: a build-up technique.
Biopolymers (1989 Jul) PMID: 2775836
Hingerty BE, Figueroa S, Hayden TL, Broyde S - Synthesis and conformation of a dinucleoside monophosphate modified by aniline.
Chem Res Toxicol (1988 May-Jun) PMID: 2979725
Jacobson MD, Shapiro R, Underwood GR, Broyde S, Verna L, Hingerty BE - Visualization of an AAF induced frameshift mutation: molecular views of base displacement in B-DNA from minimized potential energy calculations.
Nucleic Acids Res (1987 Aug 25) PMC306121 free full-text archive
Broyde S, Hingerty BE - Energy minimized structures of carcinogen-DNA adducts: 2-acetylaminofluorene and 2-aminofluorene.
J Biomol Struct Dyn (1986 Dec) PMID: 3271449
Hingerty BE, Broyde S - Conformation of d(CpG) modified by the carcinogen 4-aminobiphenyl: a combined experimental and theoretical analysis.
Biochemistry (1986 Apr 22) PMID: 3707942
Shapiro R, Underwood GR, Zawadzka H, Broyde S, Hingerty BE - Environmental carcinogens: polycyclic hydrocarbons and carcinogenesis.
Science (1985 Dec 6) PMID: 17739123
Broyde S - Carcinogen-base stacking and base-base stacking in dCpdG modified by (+) and (-) anti-BPDE.
Biopolymers (1985 Dec) PMID: 4092090
Hingerty BE, Broyde S - Influence of the carcinogen 4-aminobiphenyl on DNA conformation.
Carcinogenesis (1985 May) PMID: 4006057
Broyde S, Hingerty BE, Srinivasan AR - Conformations of DNA adducts with polycyclic aromatic carcinogens.
Prog Clin Biol Res (1985) PMID: 3991669
Broyde S, Hingerty B - Base displacement in AAF-modified Z-DNA.
Carcinogenesis (1985 Jan) PMID: 3967335
Broyde S, Hingerty B - Studies on the conformation and dynamics of the C8-substituted guanine adduct of the carcinogen acetylaminofluorene; model for a possible Z-DNA modified structure.
Nucleic Acids Res (1984 Nov 12) PMC320303 free full-text archive
Neidle S, Kuroda R, Broyde S, Hingerty BE, Levine RA, Miller DW, Evans FE - A conformational analysis of the (+) anti BPDE adduct to the guanine amino group of dCpdG.
J Biomol Struct Dyn (1983 Dec) PMID: 6443880
Hingerty B, Broyde S - Conformation of 2-aminofluorene-modified DNA.
Biopolymers (1983 Nov) PMID: 6652225
Broyde S, Hingerty B - An internal fluorene model for iodo-N-2-acetylaminofluorene modified DNA.
Chem Biol Interact (1983 Oct 15) PMID: 6640786
Broyde S, Hingerty B - AAF linked to the guanine amino group: a B-Z junction.
Nucleic Acids Res (1983 May 25) PMC325960 free full-text archive
Hingerty B, Broyde S - Conformation of the deoxydinucleoside monophosphate dCpdG modified at carbon 8 of guanine with 2-(acetylamino)fluorene.
Biochemistry (1982 Jun 22) PMID: 7104322
Hingerty B, Broyde S - The poly(rU) coil: a minimum-energy model that matches experimental observations.
Biopolymers (1982 Jun) PMID: 6178444
Hingerty BE, Broyde SB, Olson WK - DNA backbone conformation in AAF modified dCpdG: variable conformational modes of achieving base displacement.
Chem Biol Interact (1982 May) PMID: 7074712
Broyde S, Hingerty BE - Z-DNA conformation of N-2-acetylaminofluorene modified poly(dG-dC).poly(dG-dC) determined by reactivity with anti cytidine antibodies and minimized potential energy calculations.
Nucleic Acids Res (1981 Oct 24) PMC327532 free full-text archive
Santella RM, Grunberger D, Broyde S, Hingerty BE - Conformational origin of the pyrimidine (3'-5') purine base sequence preference for intercalation into RNAs.
Biopolymers (1979 Nov) PMID: 508906
Broyde S, Hingerty B - The influence of terminal 3', 5' phosphates on conformations of dApdA.
Nucleic Acids Res (1979) PMC327843 free full-text archive
Broyde S, Hingerty B - A model for the single stranded random coil form of polydeoxyadenylic acid from minimum energy conformations of the dimeric subunit.
Nucleic Acids Res (1978 Sep) PMC342246 free full-text archive
Hingerty B, Broyde S - 'A' forms of RNAs in single strands, duplexes and RNA-DNA hybrids.
Nucleic Acids Res (1978 Aug) PMC342203 free full-text archive
Broyde S, Hingerty B - Helix geometry of single stranded DNA 'A' and 'B' forms from minimum energy conformations of dimeric subunits.
Nucleic Acids Res (1978 Jan) PMC341966 free full-text archive
Hingerty B, Broyde S - Influence of ribose 2'-O-methylation on GpC conformation by classical potential energy calculations.
Biopolymers (1976 Oct) PMID: 963238
Stellman SD, Broyde SB, Wartell RM - Classical potential energy calculations for ApA, CpC, GpG, and UpU. The influence of the bases on RNA subunit conformations.
Biopolymers (1975 Aug) PMID: 1156657
Broyde SB, Wartell RM, Stellman SD, Hingerty B, Langridge R - Structure of guanylyl-3',5'-cytidine monophosphate. II. Description of the molecular and crystal structure of the calcium derivative in space group P2(1).
Biopolymers (1975 Jan) PMID: 1174655
Hingerty B, Subramanian E, Stellman SD, Broyde SB, Sato T, Langridge R - Conformational stability in dinucleoside phosphate crystals. Semiempirical potential energy calculations for uridylyl-3'-5'-adenosine monophosphate (UpA) and guanylyl-3',5'-cytidine monophosphate (GpC).
Biopolymers (1974 Jun) PMID: 4851147
Broyde SB, Stellman SD, Hingerty B, Langridge R - Structure of guanosine-3',5'-cytidine monophosphate. I. Semi-empirical potential energy calculations and model-building.
Biopolymers (1973 Dec) PMID: 4782550
Stellman SD, Hingerty B, Broyde SB, Subramanian E, Sato T, Langridge R - Letter: Conformation of guanosine cytidine 3',5'-monophosphate (GpC).
Macromolecules (1973 Jul-Aug) PMID: 4805365
Stellman SD, Hingerty B, Broyde SB, Subramanian E, Sato T, LaNGRIDGE R - Surface reactions of chlorophyll a monolayers at a water-air interface. Photochemistry and complex formation.
Biochemistry (1969 Jul) PMID: 5808354
Aghion J, Broyde SB, Brody SS - Low temperature absorption spectra of chlorophyll a in polar and nonpolar solvents.
Biophys J (1968 Dec) PMC1367452 free full-text archive
Brody SS, Broyde SB - Chlorophyll-sensitized oxidation-reduction reactions of hemin in pyridine.
Biochemistry (1968 Aug) PMID: 5666768
Brody M, Broyde SB, Yeh CC, Brody SS - Absorption difference spectroscopy of chlorophyll a in ethanol solution.
Biochim Biophys Acta (1968 Jan 15) PMID: 5638386
Broyde SB, Brody SS, Brody M - Emission spectra of chlorophyll-alpha in polar and nonpolar solvents.
J Chem Phys (1967 May 1) PMID: 6046946
Broyde SB, Brody SS - Spectral studies of a chlorophyll pigment with fluorescence maximum at 698 mu.
Biophys J (1966 May) PMC1367950 free full-text archive
Broyde SB, Brody SS - F698: A PIGMENT FOUND IN PREPARATIONS OF CHLOROPHYLL.
Biochem Biophys Res Commun (1965 May 3) PMID: 14338990
BROYDE SB, BRODY SS - PREPARATION OF A COLLOIDAL FORM OF CHLOROPHYLL A FROM CONCENTRATED SOLUTON.
Biochim Biophys Acta (1965 Mar 29) PMID: 14314370
BROYDE SB, BRODY SS - A LOW-TEMPERATURE EMISSION BAND FROM DILUTE SOLUTIONS OF PURE CHLOROPHYLL A.
Nature (1963 Sep 14) PMID: 14066950
BRODY SS, BROYDE SB - Photochemical properties of water soluble chlorophyll.
Nature (1961 Oct 14) PMID: 14482583
OSTER G, BROYDE SB
Contact Information
Suse Broyde
Professor of Biology broyde@nyu.edu Brown Building31 Washington Place
Room 1151
New York, NY 10003
Phone: (212) 998-8231