Neeraj Kumar

Dr. Neeraj Kumar

orcid

Research Focus & Metrics

Academic Career Length

16Years (2011-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

View All Publications
28 October 2016 in ACS Central Science
Verified
Journal Article
Open access
MPMichael L. Pegis
Michael L. Pegis
BMBradley A. McKeown
Bradley A. McKeown
NKNeeraj Kumar
Neeraj Kumar
KLKai Lang
Kai Lang
DWDerek J. Wasylenko
Derek J. Wasylenko
JMJames M. Mayer
James M. Mayer
Improved electrocatalysts for the oxygen reduction reaction (ORR) are critical for the advancement of fuel cell technologies. Herein, we report a series of 11 soluble iron porphyrin ORR electrocatalysts that possess turnover frequencies (TOFs) from 3 s–1 to an unprecedented value of 2.2 × 106 s–1. These TOFs correlate with the ORR overpotential, which can be modulated by changing the E1/2 of the catalyst using different ancillary ligands, by changing the solvent and solution acidity, and by changing the catalyst’s protonation state. The overpotential is well-defined for these homogeneous electrocatalysts by the E1/2 of the catalyst and the proton activity of the solution. This is the first such correlation for homogeneous ORR electrocatalysis, and it demonstrates that the remarkably fast TOFs are a consequence of high overpotential. The correlation with overpotential is surprising since the turnover limiting steps involve oxygen binding and protonation, as opposed to turnover limiting electron transfer commonly found in Tafel analysis of heterogeneous ORR materials. Computational studies show that the free energies for oxygen binding to the catalyst and for protonation of the superoxide complex are in general linearly related to the catalyst E1/2, and that this is the origin of the overpotential correlations. This analysis thus provides detailed understanding of the ORR barriers. The best catalysts involve partial decoupling of the influence of the second coordination sphere from the properties of the metal center, which is suggested as new molecular design strategy to avoid the limitations of the traditional scaling relationships for these catalysts.

1 May 2019 in Journal of the American Chemical Society
Verified
Journal Article
Closed access
MPMichael L. Pegis
Michael L. Pegis
DMDaniel J. Martin
Daniel J. Martin
CWCatherine F. Wise
Catherine F. Wise
ABAnna C. Brezny
Anna C. Brezny
SJSamantha I. Johnson
Samantha I. Johnson
JMJames M. Mayer
James M. Mayer

18 November 2021 in Journal of Chemical Information and Modeling
Verified
Journal Article
Open access
ACAustin Clyde
Austin Clyde
SGStephanie Galanie
Stephanie Galanie
DKDaniel W. Kneller
Daniel W. Kneller
HMHeng Ma
Heng Ma
YBYadu Babuji
Yadu Babuji
RSRick L. Stevens
Rick L. Stevens
Despite the recent availability of vaccines against the acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the search for inhibitory therapeutic agents has assumed importance especially in the context of emerging new viral variants. In this paper, we describe the discovery of a novel noncovalent small-molecule inhibitor, MCULE-5948770040, that binds to and inhibits the SARS-Cov-2 main protease (Mpro) by employing a scalable high-throughput virtual screening (HTVS) framework and a targeted compound library of over 6.5 million molecules that could be readily ordered and purchased. Our HTVS framework leverages the U.S. supercomputing infrastructure achieving nearly 91% resource utilization and nearly 126 million docking calculations per hour. Downstream biochemical assays validate this Mpro inhibitor with an inhibition constant (Ki) of 2.9 μM (95% CI 2.2, 4.0). Furthermore, using room-temperature X-ray crystallography, we show that MCULE-5948770040 binds to a cleft in the primary binding site of Mpro forming stable hydrogen bond and hydrophobic interactions. We then used multiple μs-time scale molecular dynamics (MD) simulations and machine learning (ML) techniques to elucidate how the bound ligand alters the conformational states accessed by Mpro, involving motions both proximal and distal to the binding site. Together, our results demonstrate how MCULE-5948770040 inhibits Mpro and offers a springboard for further therapeutic design.

23 June 2021 in ACS Applied Materials & Interfaces
Verified
Journal Article
Closed access
IMIsaiah A. Moses
Isaiah A. Moses
RJRajendra P. Joshi
Rajendra P. Joshi
BOBurak Ozdemir
Burak Ozdemir
NKNeeraj Kumar
Neeraj Kumar
JEJesse Eickholt
Jesse Eickholt
VBVeronica Barone
Veronica Barone

31 January 2011 in The Journal of Physical Chemistry A
Verified
Journal Article
Closed access
KKKarina Kornobis
Karina Kornobis
NKNeeraj Kumar
Neeraj Kumar
Bryan M. WongBryan M. Wong
Bryan M. Wong
Piotr LodowskiPiotr Lodowski
Piotr Lodowski
MJMaria Jaworska
Maria Jaworska
PKPawel M. Kozlowski
Pawel M. Kozlowski

10 January 2020 in Journal of the American Chemical Society
Verified
Journal Article
Closed access
JAJacob H. Artz
Jacob H. Artz
OZOleg A. Zadvornyy
Oleg A. Zadvornyy
DMDavid W. Mulder
David W. Mulder
SKStephen Michael Keable
Stephen Michael Keable
ACAina E. Cohen
Aina E. Cohen
JPJohn Peters
John Peters