| Year |
Citation |
Score |
| 2022 |
Ten TB, Zvoda V, Sarangi MK, Kuznetsov SV, Ansari A. "Flexible hinge" dynamics in mismatched DNA revealed by fluorescence correlation spectroscopy. Journal of Biological Physics. PMID 35451661 DOI: 10.1007/s10867-022-09607-x |
0.733 |
|
| 2021 |
Tavakoli A, Paul D, Mu H, Kuchlyan J, Baral S, Ansari A, Broyde S, Min JH. Light-induced modulation of DNA recognition by the Rad4/XPC damage sensor protein. Rsc Chemical Biology. 2: 523-536. PMID 34041491 DOI: 10.1039/d0cb00192a |
0.35 |
|
| 2020 |
Paul D, Mu H, Tavakoli A, Dai Q, Chen X, Chakraborty S, He C, Ansari A, Broyde S, Min JH. Tethering-facilitated DNA 'opening' and complementary roles of β-hairpin motifs in the Rad4/XPC DNA damage sensor protein. Nucleic Acids Research. PMID 33119737 DOI: 10.1093/nar/gkaa909 |
0.315 |
|
| 2019 |
Sarangi MK, Zvoda V, Holte MN, Becker NA, Peters JP, Maher LJ, Ansari A. Evidence for a bind-then-bend mechanism for architectural DNA binding protein yNhp6A. Nucleic Acids Research. PMID 30698746 DOI: 10.1093/Nar/Gkz022 |
0.756 |
|
| 2019 |
Connolly M, Arra A, Zvoda V, Steinbach PJ, Rice P, Ansari A. To Kink or Not to Kink: Sequence-Dependent DNA Flexibility Unveiled in Complex with DNA-Bending Protein IHF Biophysical Journal. 116. DOI: 10.1016/J.Bpj.2018.11.2695 |
0.437 |
|
| 2019 |
Chakraborty S, Baral S, Paul D, Steinbach PJ, Rice PA, Min J, Ansari A. Evidence for Conformational Capture Mechanism for Damage Recognition by DNA Repairprotein Rad4 Biophysical Journal. 116: 499a. DOI: 10.1016/J.Bpj.2018.11.2690 |
0.383 |
|
| 2019 |
Zvoda V, Sarangi MK, Nelson Holte M, Becker NA, Peters JP, Maher LJ, Ansari A. DNA Bending/Unbending Rates Revealed for Nonspecific Architectural DNA-Binding Protein yNhp6A Biophysical Journal. 116: 211a. DOI: 10.1016/J.Bpj.2018.11.1165 |
0.744 |
|
| 2018 |
Connolly M, Arra A, Zvoda V, Steinbach PJ, Rice PA, Ansari A. Static Kinks or Flexible Hinges: Multiple Conformations of Bent DNA Bound to Integration Host Factor Revealed by Fluorescence Lifetime Measurements. The Journal of Physical Chemistry. B. PMID 30336035 DOI: 10.1021/Acs.Jpcb.8B07405 |
0.46 |
|
| 2018 |
Chakraborty S, Paul D, Baral S, Mu H, Steinbach PJ, Broyde S, Min J, Ansari A. Visualizing Spontaneous DNA Dynamics and its Role in Mismatch Recognition by Damage Recognition Protein Rad4 Biophysical Journal. 114: 85a. DOI: 10.1016/J.Bpj.2017.11.507 |
0.454 |
|
| 2018 |
Chakraborty S, Paul D, Min J, Rice PA, Ansari A. Using Minicircles to Test the Role of DNA Bending in Mismatch Recognition by Rad4/XPC Biophysical Journal. 114: 596a. DOI: 10.1016/J.Bpj.2017.11.3257 |
0.36 |
|
| 2018 |
Connolly M, Zvoda V, Ansari A. Equilibrium Conformational Distributions of Bent DNA in Complex with IHF Mapped with Fluorescence Lifetime Measurements Biophysical Journal. 114. DOI: 10.1016/J.Bpj.2017.11.208 |
0.361 |
|
| 2017 |
Chakraborty S, Steinbach PJ, Paul D, Mu H, Broyde S, Min JH, Ansari A. Enhanced spontaneous DNA twisting/bending fluctuations unveiled by fluorescence lifetime distributions promote mismatch recognition by the Rad4 nucleotide excision repair complex. Nucleic Acids Research. PMID 29267981 DOI: 10.1093/Nar/Gkx1216 |
0.463 |
|
| 2017 |
Velmurugu Y, Vivas P, Connolly M, Kuznetsov SV, Rice PA, Ansari A. Two-step interrogation then recognition of DNA binding site by Integration Host Factor: an architectural DNA-bending protein. Nucleic Acids Research. PMID 29267885 DOI: 10.1093/Nar/Gkx1215 |
0.463 |
|
| 2016 |
Velmurugu Y, Chen X, Slogoff Sevilla P, Min JH, Ansari A. Twist-open mechanism of DNA damage recognition by the Rad4/XPC nucleotide excision repair complex. Proceedings of the National Academy of Sciences of the United States of America. PMID 27035942 DOI: 10.1073/Pnas.1514666113 |
0.43 |
|
| 2016 |
Chakraborty S, Chen X, Slogoff-Sevilla P, Velmurugu Y, Steinbach PJ, Min J, Ansari A. DNA Conformational Distribution and Dynamics during Search and Recognition of Damaged Sites by DNA Repair Protein RAD4/XPC Biophysical Journal. 110. DOI: 10.1016/J.Bpj.2015.11.413 |
0.463 |
|
| 2015 |
Chen X, Velmurugu Y, Zheng G, Park B, Shim Y, Kim Y, Liu L, Van Houten B, He C, Ansari A, Min JH. Kinetic gating mechanism of DNA damage recognition by Rad4/XPC. Nature Communications. 6: 5849. PMID 25562780 DOI: 10.1038/Ncomms6849 |
0.429 |
|
| 2015 |
Sarangi MK, Nelson-Holte M, Maher J, Ansari A. Probing DNA Bending Kinetics by yNhp6A with Ultrafast Temperature Jump Spectroscopy Biophysical Journal. 108: 400a. DOI: 10.1016/J.Bpj.2014.11.2193 |
0.759 |
|
| 2015 |
Roca J, Velmurugu Y, Narayanan R, Narayanan P, Kouznetsov S, Ansari A. RNA Pseudoknot Folding Energy Landscape Elucidated with T-Jump Measurements and Kinetic Modeling Biophysical Journal. 108: 2-6. DOI: 10.1016/J.Bpj.2014.11.1307 |
0.307 |
|
| 2014 |
Velmurugu Y, Chen X, Min J, Ansari A. Dynamics of DNA Damage Recognition by Nucleotide Excision Repair Protein XPC Biophysical Journal. 106. DOI: 10.1016/J.Bpj.2013.11.3819 |
0.443 |
|
| 2013 |
Vivas P, Velmurugu Y, Kuznetsov SV, Rice PA, Ansari A. Global analysis of ion dependence unveils hidden steps in DNA binding and bending by integration host factor. The Journal of Chemical Physics. 139: 121927. PMID 24089739 DOI: 10.1063/1.4818596 |
0.496 |
|
| 2012 |
Narayanan R, Zhu L, Velmurugu Y, Roca J, Kuznetsov SV, Prehna G, Lapidus LJ, Ansari A. Exploring the energy landscape of nucleic acid hairpins using laser temperature-jump and microfluidic mixing. Journal of the American Chemical Society. 134: 18952-63. PMID 23078026 DOI: 10.1021/Ja301218E |
0.363 |
|
| 2012 |
Vivas P, Velmurugu Y, Kuznetsov SV, Rice PA, Ansari A. Mapping the transition state for DNA bending by IHF. Journal of Molecular Biology. 418: 300-15. PMID 22370561 DOI: 10.1016/J.Jmb.2012.02.028 |
0.505 |
|
| 2012 |
Kuznetsov SV, Ansari A. A kinetic zipper model with intrachain interactions applied to nucleic acid hairpin folding kinetics. Biophysical Journal. 102: 101-11. PMID 22225803 DOI: 10.1016/J.Bpj.2011.11.4017 |
0.398 |
|
| 2010 |
Vivas P, Yogambigai V, Kuznetsov SV, Rice PA, Ansari A. Dynamics of DNA-Bending in Binding Site Recognition by IHF Biophysical Journal. 98. DOI: 10.1016/J.Bpj.2009.12.3625 |
0.477 |
|
| 2010 |
Yogambigai V, Narayanan R, Kuznetsov SV, Hingorani M, Ansari A. Finding the Right ‘Mis’Match: Millisecond Conformational Dynamics of MutS-DNA Complex During DNA Damage Recognition Biophysical Journal. 98: 270a. DOI: 10.1016/J.Bpj.2009.12.1474 |
0.46 |
|
| 2009 |
Kuznetsov SV, Ansari A. Is the Formation of the Correct Nucleating Loop the Rate-Limiting Step in Hairpin Formation in ss-Polynucleotides? Biophysical Journal. 96: 5-8. DOI: 10.1016/J.Bpj.2008.12.3023 |
0.343 |
|
| 2009 |
Vivas P, Yogambigai V, Kuznetsov SV, Ansari A. The Role of DNA “Bendability” in the Indirect Read-Out Mechanism of Protein-DNA Interactions Biophysical Journal. 96. DOI: 10.1016/J.Bpj.2008.12.211 |
0.481 |
|
| 2009 |
Vivas P, Kuznetsov SV, Ansari A. Ion Exchange in the Nonspecific Bimolecular Association and the Unimolecular DNA Bending in Specific Binding of IHF to DNA Biophysical Journal. 96. DOI: 10.1016/J.Bpj.2008.12.209 |
0.466 |
|
| 2008 |
Vivas P, Kuznetsov SV, Ansari A. New insights into the transition pathway from nonspecific to specific complex of DNA with Escherichia coli integration host factor. The Journal of Physical Chemistry. B. 112: 5997-6007. PMID 18461910 DOI: 10.1021/Jp076042S |
0.467 |
|
| 2008 |
Kuznetsov SV, Ren CC, Woodson SA, Ansari A. Loop dependence of the stability and dynamics of nucleic acid hairpins. Nucleic Acids Research. 36: 1098-112. PMID 18096625 DOI: 10.1093/Nar/Gkm1083 |
0.302 |
|
| 2006 |
Kuznetsov SV, Sugimura S, Vivas P, Crothers DM, Ansari A. Direct observation of DNA bending/unbending kinetics in complex with DNA-bending protein IHF. Proceedings of the National Academy of Sciences of the United States of America. 103: 18515-20. PMID 17124171 DOI: 10.1073/Pnas.0608394103 |
0.492 |
|
| 2006 |
Kuznetsov SV, Kozlov AG, Lohman TM, Ansari A. Microsecond dynamics of protein-DNA interactions: direct observation of the wrapping/unwrapping kinetics of single-stranded DNA around the E. coli SSB tetramer. Journal of Molecular Biology. 359: 55-65. PMID 16677671 DOI: 10.1016/J.Jmb.2006.02.070 |
0.478 |
|
| 2005 |
Ansari A, Kuznetsov SV. Is hairpin formation in single-stranded polynucleotide diffusion-controlled? The Journal of Physical Chemistry. B. 109: 12982-9. PMID 16852611 DOI: 10.1021/Jp044838A |
0.34 |
|
| 2002 |
Kuznetsov SV, Shen Y, Benight AS, Ansari A. A semiflexible polymer model applied to loop formation in DNA hairpins. Biophysical Journal. 81: 2864-75. PMID 11606297 DOI: 10.1016/S0006-3495(01)75927-9 |
0.367 |
|
| 2001 |
Kuznetsov SV, Sidorkina OM, Laval J, Ansari A. Characterization of Thermal Stability of the Escherichia coli Fapy–DNA Glycosylase Biochemical and Biophysical Research Communications. 288: 121-128. PMID 11594762 DOI: 10.1006/Bbrc.2001.5732 |
0.3 |
|
| 2001 |
Ansari A, Kuznetsov SV, Shen Y. Configurational diffusion down a folding funnel describes the dynamics of DNA hairpins Proceedings of the National Academy of Sciences of the United States of America. 98: 7771-7776. PMID 11438730 DOI: 10.1073/Pnas.131477798 |
0.389 |
|
| 2001 |
Shen Y, Kuznetsov SV, Ansari A. Loop Dependence of the Dynamics of DNA Hairpins Journal of Physical Chemistry B. 105: 12202-12211. DOI: 10.1021/Jp0121926 |
0.353 |
|
| 1994 |
Ansari A, Jones CM, Henry ER, Hofrichter J, Eaton WA. Conformational relaxation and ligand binding in myoglobin Biochemistry. 33: 5128-5145. PMID 8172888 DOI: 10.1021/Bi00183A017 |
0.614 |
|
| 1994 |
Hofrichter J, Ansari A, Jones CM, Deutsch RM, Sommer JH, Henry ER. Ligand binding and conformational changes measured by time-resolved absorption spectroscopy. Methods in Enzymology. 232: 387-415. PMID 8057870 DOI: 10.1016/0076-6879(94)32056-X |
0.321 |
|
| 1993 |
Ansari A, Jones CM, Henry ER, Hofrichter J, Eaton WA. Photoselection in polarized photolysis experiments on heme proteins. Biophysical Journal. 64: 852-68. PMID 8471730 DOI: 10.1016/S0006-3495(93)81446-2 |
0.541 |
|
| 1992 |
Jones CM, Ansari A, Henry ER, Christoph GW, Hofrichter J, Eaton WA. Speed of intersubunit communication in proteins. Biochemistry. 31: 6692-702. PMID 1637808 DOI: 10.1021/Bi00144A008 |
0.57 |
|
| 1992 |
Ansari A, Jones CM, Henry ER, Hofrichter J, Eaton WA. The role of solvent viscosity in the dynamics of protein conformational changes. Science (New York, N.Y.). 256: 1796-8. PMID 1615323 DOI: 10.1126/Science.1615323 |
0.587 |
|
| 1991 |
Hofrichter J, Henry ER, Szabo A, Murray LP, Ansari A, Jones CM, Coletta M, Falcioni G, Brunori M, Eaton WA. Dynamics of the quaternary conformational change in trout hemoglobin. Biochemistry. 30: 6583-98. PMID 2054357 DOI: 10.1021/Bi00240A031 |
0.564 |
|
| 1991 |
Steinbach PJ, Ansari A, Berendzen J, Braunstein D, Chu K, Cowen BR, Ehrenstein D, Frauenfelder H, Johnson JB, Lamb DC. Ligand binding to heme proteins: connection between dynamics and function. Biochemistry. 30: 3988-4001. PMID 2018767 DOI: 10.1021/Bi00230A026 |
0.763 |
|
| 1990 |
Ormos P, Ansari A, Braunstein D, Cowen BR, Frauenfelder H, Hong MK, Iben IE, Sauke TB, Steinbach PJ, Young RD. Inhomogeneous broadening in spectral bands of carbonmonoxymyoglobin. The connection between spectral and functional heterogeneity. Biophysical Journal. 57: 191-9. PMID 2317545 DOI: 10.1016/S0006-3495(90)82522-4 |
0.733 |
|
| 1990 |
Frauenfelder H, Alberding NA, Ansari A, Braunstein D, Cowen BR, Hong MK, Iben IET, Johnson JB, Luck S, Marden MC, Mourant JR, Ormos P, Reinisch L, Scholl R, Schulte A, et al. Proteins and pressure Journal of Physical Chemistry. 94: 1024-1037. DOI: 10.1021/J100366A002 |
0.689 |
|
| 1988 |
Braunstein D, Ansari A, Berendzen J, Cowen BR, Egeberg KD, Frauenfelder H, Hong MK, Ormos P, Sauke TB, Scholl R. Ligand binding to synthetic mutant myoglobin (His-E7----Gly): role of the distal histidine. Proceedings of the National Academy of Sciences of the United States of America. 85: 8497-501. PMID 3186740 DOI: 10.1073/Pnas.85.22.8497 |
0.751 |
|
| 1987 |
Ansari A, Berendzen J, Braunstein D, Cowen BR, Frauenfelder H, Hong MK, Iben IE, Johnson JB, Ormos P, Sauke TB. Rebinding and relaxation in the myoglobin pocket. Biophysical Chemistry. 26: 337-55. PMID 3607234 DOI: 10.1016/0301-4622(87)80034-0 |
0.746 |
|
| 1986 |
Ansari A, DiIorio EE, Dlott DD, Frauenfelder H, Iben IE, Langer P, Roder H, Sauke TB, Shyamsunder E. Ligand binding to heme proteins: relevance of low-temperature data. Biochemistry. 25: 3139-46. PMID 3730353 DOI: 10.1021/Bi00359A011 |
0.61 |
|
| 1985 |
Ansari A, Berendzen J, Bowne SF, Frauenfelder H, Iben IE, Sauke TB, Shyamsunder E, Young RD. Protein states and proteinquakes. Proceedings of the National Academy of Sciences of the United States of America. 82: 5000-4. PMID 3860839 DOI: 10.1073/Pnas.82.15.5000 |
0.551 |
|
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