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• 2016

  NMR Scalar Couplings across Intermolecular Hydrogen Bonds between Zinc-Finger Histidine Side Chains and DNA Phosphate Groups

  Chattopadhyay, A., Esadze, A., Roy, S. & Iwahara, J., Oct 20 2016, In: Journal of Physical Chemistry B. 120, 41, p. 10679-10685 7 p.

  Research output: Contribution to journal › Article › peer-review

  • histidine
  • Hydrogen bonds
  • Nuclear magnetic resonance
  • Phosphates
  • Histidine
  7 Scopus citations

• Stereospecific Effects of Oxygen-to-Sulfur Substitution in DNA Phosphate on Ion Pair Dynamics and Protein–DNA Affinity

  Nguyen, D., Zandarashvili, L., White, M. A. & Iwahara, J., Sep 2 2016, In: ChemBioChem. p. 1636-1642 7 p.

  Research output: Contribution to journal › Article › peer-review

  • Sulfur
  • Substitution reactions
  • Phosphates
  • Ions
  • Oxygen
  7 Scopus citations
• 2018

  Lysines and Arginines play non-redundant roles in mediating chemokine-glycosaminoglycan interactions

  Joseph, P. R. B., Sawant, K. V., Iwahara, J., Garofalo, R. P., Desai, U. R. & Rajarathnam, K., Dec 1 2018, In: Scientific reports. 8, 1, 12289.

  Research output: Contribution to journal › Article › peer-review

  • Glycosaminoglycans
  • Lysine
  • Chemokines
  • Arginine
  • Neutrophils
  3 Scopus citations

• NMR Methods for Characterizing the Basic Side Chains of Proteins: Electrostatic Interactions, Hydrogen Bonds, and Conformational Dynamics

  Nguyen, D., Chen, C., Pettitt, B. & Iwahara, J., Jan 1 2018, (Accepted/In press) In: Methods in Enzymology.

  Research output: Contribution to journal › Article › peer-review

  • Coulomb interactions
  • Hydrogen bonds
  • Nuclear magnetic resonance
  • Static Electricity
  • Hydrogen
  3 Scopus citations
• 2011

  Signature of mobile hydrogen bonding of lysine side chains from long-range ¹⁵N-¹³C scalar J-couplings and computation

  Zandarashvili, L., Li, D. W., Wang, T., Brüschweiler, R. & Iwahara, J., Jun 22 2011, In: Journal of the American Chemical Society. 133, 24, p. 9192-9195 4 p.

  Research output: Contribution to journal › Article › peer-review

  • Hydrogen bonds
  • Hydrogen Bonding
  • Hydrogen
  • Lysine
  • Molecular Dynamics Simulation
  29 Scopus citations
• 2018

  NMR-based investigations into target DNA search processes of proteins

  Iwahara, J., Zandarashvili, L., Kemme, C. A. & Esadze, A., Sep 15 2018, In: Methods. 148, p. 57-66 10 p.

  Research output: Contribution to journal › Review article › peer-review

  • Nuclear magnetic resonance
  • DNA
  • DNA Repair Enzymes
  • Proteins
  • Nuclear magnetic resonance spectroscopy
  9 Scopus citations

• Direct detection of lysine side chain NH₃⁺ in protein-heparin complexes using NMR spectroscopy

  Sepuru, K. M., Iwahara, J. & Rajarathnam, K., Feb 7 2018, In: Analyst. 143, 3, p. 635-638 4 p.

  Research output: Contribution to journal › Article › peer-review

  • Chemical shift
  • Heparin
  • Nuclear magnetic resonance spectroscopy
  • Lysine
  • nuclear magnetic resonance
  7 Scopus citations

• Impact of two-bond ¹⁵N–¹⁵N scalar couplings on ¹⁵N transverse relaxation measurements for arginine side chains of proteins

  Nguyen, D. & Iwahara, J., May 1 2018, In: Journal of Biomolecular NMR. 71, 1, p. 45-51 7 p.

  Research output: Contribution to journal › Article › peer-review

  • Arginine
  • Modulation
  • Nuclear magnetic resonance
  • Proteins
  • Quenching
  3 Scopus citations
• 2016

  Regulation of transcription factors via natural decoys in genomic DNA

  Kemme, C. A., Nguyen, D., Chattopadhyay, A. & Iwahara, J., Aug 7 2016, In: Transcription. 7, 4, p. 115-120 6 p.

  Research output: Contribution to journal › Review article › peer-review

  • Transcription Factors
  • DNA
  • Genes
  13 Scopus citations

• Residence Times of Molecular Complexes in Solution from NMR Data of Intermolecular Hydrogen-Bond Scalar Coupling

  Zandarashvili, L., Esadze, A., Kemme, C. A., Chattopadhyay, A., Nguyen, D. & Iwahara, J., Mar 3 2016, In: Journal of Physical Chemistry Letters. 7, 5, p. 820-824 5 p.

  Research output: Contribution to journal › Article › peer-review

  • Hydrogen bonds
  • Nuclear magnetic resonance
  • hydrogen bonds
  • nuclear magnetic resonance
  • decoupling
  12 Scopus citations

• Thermodynamic Additivity for Impacts of Base-Pair Substitutions on Association of the Egr-1 Zinc-Finger Protein with DNA

  Chattopadhyay, A., Zandarashvili, L., Luu, R. H. & Iwahara, J., Nov 29 2016, In: Biochemistry. 55, 47, p. 6467-6474 8 p.

  Research output: Contribution to journal › Article › peer-review

  • Thermodynamics
  • Zinc Fingers
  • Base Pairing
  • Free energy
  • Substitution reactions
  5 Scopus citations
• 2012

  Asymmetrical roles of zinc fingers in dynamic DNA-scanning process by the inducible transcription factor Egr-1

  Zandarashvili, L., Vuzman, D., Esadze, A., Takayama, Y., Sahu, D., Levy, Y. & Iwahara, J., Jun 26 2012, In: Proceedings of the National Academy of Sciences of the United States of America. 109, 26, p. E1724-E1732

  Research output: Contribution to journal › Article › peer-review

  • Zinc Fingers
  • Transcription Factors
  • DNA
  • Kinetics
  • Mutant Proteins
  74 Scopus citations
• 2017

  Internal Motions of Basic Side Chains of the Antennapedia Homeodomain in the Free and DNA-Bound States

  Nguyen, D., Hoffpauir, Z. A. & Iwahara, J., Nov 7 2017, In: Biochemistry. 56, 44, p. 5866-5869 4 p.

  Research output: Contribution to journal › Article › peer-review

  • DNA
  • Molecular recognition
  • Nuclear magnetic resonance spectroscopy
  • Hydrogen bonds
  • Thymine
  13 Scopus citations

• A unique and simple approach to improve sensitivity in ¹⁵N-NMR relaxation measurements for NH₃⁺ groups: Application to a protein-DNA complex

  Nguyen, D., Lokesh, G. L. R., Volk, D. E. & Iwahara, J., Aug 2017, In: Molecules. 22, 8, 1355.

  Research output: Contribution to journal › Article › peer-review

  • Nuclear magnetic resonance
  • Lysine
  • deoxyribonucleic acid
  • proteins
  • nuclear magnetic resonance
  4 Scopus citations

• Discrete-State Kinetics Model for NMR-Based Analysis of Protein Translocation on DNA at Equilibrium

  Sahu, D. & Iwahara, J., Oct 19 2017, In: Journal of Physical Chemistry B. 121, 41, p. 9548-9556 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Nuclear magnetic resonance
  • DNA
  • Proteins
  • deoxyribonucleic acid
  • proteins
  4 Scopus citations

• Potential role of DNA methylation as a facilitator of target search processes for transcription factors through interplay with methyl-CpG-binding proteins

  Kemme, C. A., Marquez, R., Luu, R. H. & Iwahara, J., Jul 1 2017, In: Nucleic acids research. 45, 13, p. 7751-7759 9 p.

  Research output: Contribution to journal › Article › peer-review

  • DNA Methylation
  • Carrier Proteins
  • Transcription Factors
  • Methyl CpG Binding Domain
  • CpG Islands
  5 Scopus citations
• 2016

  Changes in conformational dynamics of basic side chains upon protein-DNA association

  Esadze, A., Chen, C., Zandarashvili, L., Roy, S., Pettitt, B. M. & Iwahara, J., Aug 19 2016, In: Nucleic acids research. 44, 14, p. 6961-6970 10 p.

  Research output: Contribution to journal › Article › peer-review

  • DNA
  • Lysine
  • Arginine
  • Proteins
  • Entropy
  41 Scopus citations
• 2011

  Dynamics of lysine side-chain amino groups in a protein studied by heteronuclear ¹H-¹⁵N NMR spectroscopy

  Esadze, A., Li, D. W., Wang, T., Brüschweiler, R. & Iwahara, J., Feb 2 2011, In: Journal of the American Chemical Society. 133, 4, p. 909-919 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Nuclear magnetic resonance spectroscopy
  • Proton Magnetic Resonance Spectroscopy
  • Lysine
  • Proteins
  • Magnetic Resonance Spectroscopy
  60 Scopus citations