<h1>Vaidehi, Nagarajan</h1>
<h2>Combined from <a href="https://authors.library.caltech.edu">CaltechAUTHORS</a></h2>
<ul>
<li>Lee, Sangbae and Devamani, Titu, el al. (2017) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20171009-115239146">Distinct structural mechanisms determine substrate affinity and kinase activity of protein kinase Cα</a>; Journal of Biological Chemistry; Vol. 292; No. 39; 16300-16309; PMCID PMC5625059; <a href="https://doi.org/10.1074/jbc.M117.804781">10.1074/jbc.M117.804781</a></li>
<li>Wang, Pin and Vaidehi, Nagarajan, el al. (2015) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20150116-152910657">Virtual Screening for Binding of Phenylalanine Analogues to Phenylalanyl-tRNA Synthetase</a>; Journal of the American Chemical Society; Vol. 124; No. 48; 14442-14449; <a href="https://doi.org/10.1021/ja0175441">10.1021/ja0175441</a></li>
<li>Pascal, Tod A. and Goddard, William A., III, el al. (2012) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20121113-113520226">Role of Specific Cations and Water Entropy on the Stability of Branched DNA Motif Structures</a>; Journal of Physical Chemistry B; Vol. 116; No. 40; 12159-12167; <a href="https://doi.org/10.1021/jp306473u">10.1021/jp306473u</a></li>
<li>Heo, Jiyoung and Vaidehi, Nagarajan, el al. (2007) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20190226-155229153">Prediction of the 3-D structure of rat MrgA G protein-coupled receptor and identification of its binding site</a>; Journal of Molecular Graphics and Modelling; Vol. 26; No. 4; 800-812; PMCID PMC2151207; <a href="https://doi.org/10.1016/j.jmgm.2007.07.003">10.1016/j.jmgm.2007.07.003</a></li>
<li>Li, Youyong and Zhu, Fangqiang, el al. (2007) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20170515-111024186">Prediction of the 3D Structure and Dynamics of Human DP G-Protein Coupled Receptor Bound to an Agonist and an Antagonist</a>; Journal of the American Chemical Society; Vol. 129; No. 35; 10720-10731; PMCID PMC2535578; <a href="https://doi.org/10.1021/ja070865d">10.1021/ja070865d</a></li>
<li>Maiti, Prabal K. and Pascal, Tod A., el al. (2007) <a href="https://resolver.caltech.edu/CaltechAUTHORS:MAIjnn07">Understanding DNA based Nanostructures</a>; Journal of Nanoscience and Nanotechnology; Vol. 7; No. 6; 1712-1720; <a href="https://doi.org/10.1166/jnn.2007.704">10.1166/jnn.2007.704</a></li>
<li>Ryman-Rasmussen, Jessica P. and Griffith, Adam, el al. (2007) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20190227-080144342">Functional selectivity of dopamine D_1 receptor agonists in regulating the fate of internalized receptors</a>; Neuropharmacology; Vol. 52; No. 2; 562-575; PMCID PMC1855220; <a href="https://doi.org/10.1016/j.neuropharm.2006.08.028">10.1016/j.neuropharm.2006.08.028</a></li>
<li>Vaidehi, Nagarajan and Schyler, Sabine, el al. (2006) <a href="https://resolver.caltech.edu/CaltechAUTHORS:VAIjbc06">Predictions of CCR1 Chemokine Receptor Structure and BX 471 Antagonist Binding Followed by Experimental Validation</a>; Journal of Biological Chemistry; Vol. 281; No. 37; 27613-27620; <a href="https://doi.org/10.1074/jbc.M601389200">10.1074/jbc.M601389200</a></li>
<li>Gama, Cristal I. and Tully, Sarah E., el al. (2006) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20150408-095647687">Sulfation patterns of glycosaminoglycans encode molecular recognition and activity</a>; Nature Chemical Biology; Vol. 2; No. 9; 467-473; <a href="https://doi.org/10.1038/nchembio810">10.1038/nchembio810</a></li>
<li>Trabanino, Rene J. and Vaidehi, Nagarajan, el al. (2006) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20170609-074403703">Exploring the Molecular Mechanism for Color Distinction in Humans</a>; Journal of Physical Chemistry B; Vol. 110; No. 34; 17230-17239; <a href="https://doi.org/10.1021/jp057144q">10.1021/jp057144q</a></li>
<li>McClendon, Christopher L. and Vaidehi, Nagarajan, el al. (2006) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20110711-100506607">Fidelity of seryl-tRNA synthetase to binding of natural amino acids from HierDock first principles computations</a>; Protein Engineering, Design and Selection; Vol. 19; No. 5; 195-203; <a href="https://doi.org/10.1093/protein/gzl001">10.1093/protein/gzl001</a></li>
<li>Spijker, Peter and Vaidehi, Nagarajan, el al. (2006) <a href="https://resolver.caltech.edu/CaltechAUTHORS:SPIpnas06">Dynamic behavior of fully solvated beta2-adrenergic receptor, embedded in the membrane with bound agonist or antagonist</a>; Proceedings of the National Academy of Sciences of the United States of America; Vol. 103; No. 13; 4882-4887; PMCID PMC1458764; <a href="https://doi.org/10.1073/pnas.0511329103">10.1073/pnas.0511329103</a></li>
<li>Maiti, Prabal K. and Pascal, Tod A., el al. (2006) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20190226-161805256">Atomic-Level Simulations of Seeman DNA Nanostructures: The Paranemic Crossover in Salt Solution</a>; Biophysical Journal; Vol. 90; No. 5; 1463-1479; PMCID PMC1367300; <a href="https://doi.org/10.1529/biophysj.105.064733">10.1529/biophysj.105.064733</a></li>
<li>Hummel, Patrick and Vaidehi, Nagarajan, el al. (2005) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20190301-092706597">Test of the Binding Threshold Hypothesis for olfactory receptors: Explanation of the differential binding of ketones to the mouse and human orthologs of olfactory receptor 912-93</a>; Protein Science; Vol. 14; No. 3; 703-710; PMCID PMC2279295; <a href="https://doi.org/10.1110/ps.041119705">10.1110/ps.041119705</a></li>
<li>Maiti, Prabal K. and Pascal, Tod A., el al. (2004) <a href="https://resolver.caltech.edu/CaltechAUTHORS:MAInar04">The stability of Seeman JX DNA topoisomers of paranemic crossover (PX) molecules as a function of crossover number</a>; Nucleic Acids Research; Vol. 32; No. 20; 6047-6056; PMCID PMC534617; <a href="https://doi.org/10.1093/nar/gkh931">10.1093/nar/gkh931</a></li>
<li>Datta, Deepshikha and Vaidehi, Nagarajan, el al. (2004) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20170409-074101946">Selectivity and specificity of substrate binding in methionyl-tRNA synthetase</a>; Protein Science; Vol. 13; No. 10; 2693-2705; PMCID PMC2286561; <a href="https://doi.org/10.1110/ps.04792204">10.1110/ps.04792204</a></li>
<li>Hall, Spencer E. and Floriano, Wely B., el al. (2004) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20111013-095420851">Predicted 3-D Structures for Mouse I7 and Rat I7 Olfactory Receptors and Comparison of Predicted Odor Recognition Profiles with Experiment</a>; Chemical Senses; Vol. 29; No. 7; 595-616; <a href="https://doi.org/10.1093/chemse/bjh063">10.1093/chemse/bjh063</a></li>
<li>Rogstad, Daniel K. and Heo, Jiyoung, el al. (2004) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20170125-114501336">5-Formyluracil-Induced Perturbations of DNA Function</a>; Biochemistry; Vol. 43; No. 19; 5688-5697; <a href="https://doi.org/10.1021/bi030247j">10.1021/bi030247j</a></li>
<li>Floriano, Wely B. and Vaidehi, Nagarajan, el al. (2004) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20111013-073734976">Making Sense of Olfaction through Predictions of the 3-D Structure and Function of Olfactory Receptors</a>; Chemical Senses; Vol. 29; No. 4; 269-290; <a href="https://doi.org/10.1093/chemse/bjh030">10.1093/chemse/bjh030</a></li>
<li>Trabanino, Rene J. and Hall, Spencer E., el al. (2004) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20190301-092706690">First Principles Predictions of the Structure and Function of G-Protein-Coupled Receptors: Validation for Bovine Rhodopsin</a>; Biophysical Journal; Vol. 86; No. 4; 1904-1921; PMCID PMC1304048; <a href="https://doi.org/10.1016/s0006-3495(04)74256-3">10.1016/s0006-3495(04)74256-3</a></li>
<li>Kalani, M. Yashar S. and Vaidehi, Nagarajan, el al. (2004) <a href="https://resolver.caltech.edu/CaltechAUTHORS:KALpnas04">The predicted 3D structure of the human D2 dopamine receptor and the binding site and binding affinities for agonists and antagonists</a>; Proceedings of the National Academy of Sciences of the United States of America; Vol. 101; No. 11; 3815-3820; PMCID PMC374327; <a href="https://doi.org/10.1073/pnas.0400100101">10.1073/pnas.0400100101</a></li>
<li>Freddolino, Peter L. and Kalani, M. Yashar S., el al. (2004) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20141120-150243775">Predicted 3D structure for the human β2 adrenergic receptor and its binding site for agonists and antagonists</a>; Proceedings of the National Academy of Sciences of the United States of America; Vol. 101; No. 9; 2736-2741; PMCID PMC365690; <a href="https://doi.org/10.1073/pnas.0308751101">10.1073/pnas.0308751101</a></li>
<li>Floriano, Wely B. and Vaidehi, Nagarajan, el al. (2004) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20170419-103945779">HierVLS Hierarchical Docking Protocol for Virtual Ligand Screening of Large-Molecule Databases</a>; Journal of Medicinal Chemistry; Vol. 47; No. 1; 56-71; <a href="https://doi.org/10.1021/jm030271v">10.1021/jm030271v</a></li>
<li>Kekenes-Huskey, Peter M. and Vaidehi, Nagarajan, el al. (2003) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20170524-071408453">Fidelity of Phenylalanyl-tRNA Synthetase in Binding the Natural Amino Acids</a>; Journal of Physical Chemistry B; Vol. 107; No. 41; 11549-11557; <a href="https://doi.org/10.1021/jp034607o">10.1021/jp034607o</a></li>
<li>Wintrode, Patrick L. and Zhang, Deqiang, el al. (2003) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20180823-075442841">Protein Dynamics in a Family of Laboratory Evolved Thermophilic Enzymes</a>; Journal of Molecular Biology; Vol. 327; No. 3; 745-757; <a href="https://doi.org/10.1016/S0022-2836(03)00147-5">10.1016/S0022-2836(03)00147-5</a></li>
<li>Vaidehi, Nagarajan and Floriano, Wely B., el al. (2002) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20141120-095059378">Prediction of structure and function of G protein-coupled
receptors</a>; Proceedings of the National Academy of Sciences of the United States of America; Vol. 99; No. 20; 12622-12627; PMCID PMC130510; <a href="https://doi.org/10.1073/pnas.122357199">10.1073/pnas.122357199</a></li>
<li>Zhang, Deqiang and Vaidehi, Nagarajan, el al. (2002) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20141124-133350326">Structure-based design of mutant Methanococcus jannaschii tyrosyl-tRNA synthetase for incorporation of O-methyl-L-tyrosine</a>; Proceedings of the National Academy of Sciences of the United States of America; Vol. 99; No. 10; 6579-6584; PMCID PMC124445; <a href="https://doi.org/10.1073/pnas.052150499">10.1073/pnas.052150499</a></li>
<li>Datta, Deepshikha and Vaidehi, Nagarajan, el al. (2002) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20141120-095436298">Mechanism for antibody catalysis of the oxidation of water by singlet dioxygen</a>; Proceedings of the National Academy of Sciences of the United States of America; Vol. 99; No. 5; 2636-2641; PMCID PMC122400; <a href="https://doi.org/10.1073/pnas.052709399">10.1073/pnas.052709399</a></li>
<li>Tang, Yi and Ghirlanda, Giovanna, el al. (2001) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20150122-091952579">Stabilization of Coiled-Coil Peptide Domains by Introduction of Trifluoroleucine</a>; Biochemistry; Vol. 40; No. 9; 2790-2796; <a href="https://doi.org/10.1021/bi0022588">10.1021/bi0022588</a></li>
<li>Vaidehi, Nagarajan and Goddard, William A., III (2001) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20190627-122009397">Atomic-Level Simulation and Modeling of Biomacromolecules</a>; ISBN 0262024810; Computational Modeling of Genetic and Biochemical Networks; 161-188</li>
<li>Floriano, Wely B. and Vaidehi, Nagarajan, el al. (2000) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20141121-143114886">Molecular mechanisms underlying differential odor responses of a mouse olfactory receptor</a>; Proceedings of the National Academy of Sciences of the United States of America; Vol. 97; No. 20; 10712-10716; PMCID PMC27088; <a href="https://doi.org/10.1073/pnas.97.20.10712">10.1073/pnas.97.20.10712</a></li>
<li>Vaidehi, Nagarajan and Goddard, William A., III (2000) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20170719-080126858">Domain Motions in Phosphoglycerate Kinase using Hierarchical NEIMO Molecular Dynamics Simulations</a>; Journal of Physical Chemistry A; Vol. 104; No. 11; 2375-2383; <a href="https://doi.org/10.1021/jp991985d">10.1021/jp991985d</a></li>
<li>Vaidehi, Nagarajan and Goddard, William A., III (1997) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20141202-110010303">The pentamer channel stiffening model for drug action on human rhinovirus HRV-1A</a>; Proceedings of the National Academy of Sciences of the United States of America; Vol. 94; No. 6; 2466-2471; PMCID PMC20111; <a href="https://doi.org/10.1073/pnas.94.6.2466">10.1073/pnas.94.6.2466</a></li>
<li>Vaidehi, Nagarajan and Jain, Abhinandan, el al. (1996) <a href="https://resolver.caltech.edu/CaltechAUTHORS:20180720-145322871">Constant Temperature Constrained Molecular Dynamics:  The Newton−Euler Inverse Mass Operator Method</a>; Journal of Physical Chemistry; Vol. 100; No. 25; 10508-10517; <a href="https://doi.org/10.1021/jp953043o">10.1021/jp953043o</a></li>
</ul>