Research Output 1949 2020

2020

Artificial water channels enable fast and selective water permeation through water-wire networks

Song, W., Joshi, H., Chowdhury, R., Najem, J. S., Shen, Y. X., Lang, C., Henderson, C. B., Tu, Y. M., Farell, M., Pitz, M. E., Maranas, C. D., Cremer, P. S., Hickey, R. J., Sarles, S. A., Hou, J. L., Aksimentiev, A. & Kumar, M., Jan 1 2020, In : Nature nanotechnology. 15, 1, p. 73-79 7 p.

Research output: Contribution to journalArticle

Aquaporins
Permeation
wire
Wire
Water

High-resolution iron X-ray absorption spectroscopic and computational studies of non-heme diiron peroxo intermediates

Cutsail, G. E., Blaesi, E. J., Pollock, C. J., Bollinger, J. M., Krebs, C. & DeBeer, S., Feb 2020, In : Journal of Inorganic Biochemistry. 203, 110877.

Research output: Contribution to journalArticle

Open Access
X-Ray Absorption Spectroscopy
X ray absorption spectroscopy
X ray absorption
Iron
Fluorescence
2019

2-C-methylated nucleotides terminate virus RNA synthesis by preventing active site closure of the viral RNA-dependent RNA polymerase

Boehr, A. K., Arnold, J. J., Oh, H. S., Cameron, C. E. & Boehr, D. D., Jan 1 2019, In : Journal of Biological Chemistry. 294, 45, p. 16897-16907 11 p.

Research output: Contribution to journalArticle

RNA Replicase
RNA Viruses
Viral RNA
Viruses
Catalytic Domain
2 Citations (Scopus)

A chemical kinetic basis for measuring translation initiation and elongation rates from ribosome profiling data

Sharma, A. K., Sormanni, P., Ahmed, N., Ciryam, P., Friedrich, U. A., Kramer, G. & O'Brien, E. P., Jan 1 2019, In : PLoS computational biology. 15, 5, e1007070.

Research output: Contribution to journalArticle

Open Access
Chemical Kinetics
Elongation
Profiling
ribosomes
Stem cells

Adaptive Shape Ripening and Interparticle Bridging of L-Arginine-Stabilized Silica Nanoparticles during Evaporative Colloidal Crystal Assembly

Russell, J. L., Tran, N. L. L. & Mallouk, T. E., Jan 30 2019, In : ACS Applied Materials and Interfaces. 11, 4, p. 4568-4577 10 p.

Research output: Contribution to journalArticle

Arginine
Silicon Dioxide
Colloids
Silica
Nanoparticles
1 Citation (Scopus)

A Fluorogenic AggTag Method Based on Halo- and SNAP-Tags to Simultaneously Detect Aggregation of Two Proteins in Live Cells

Jung, K. H., Kim, S. F., Liu, Y. & Zhang, X., Apr 15 2019, In : ChemBioChem. 20, 8, p. 1078-1087 10 p.

Research output: Contribution to journalArticle

Agglomeration
Proteins
Ligands
Neurodegenerative Diseases
Bearings (structural)

Analysis of RNA Methylation by Phylogenetically Diverse Cfr Radical S-Adenosylmethionine Enzymes Reveals an Iron-Binding Accessory Domain in a Clostridial Enzyme

Gumkowski, J. D., Martinie, R. J., Corrigan, P. S., Pan, J., Bauerle, M. R., Almarei, M., Booker, S. J., Silakov, A., Krebs, C. & Boal, A. K., Jun 27 2019, In : Biochemistry. 58, 29, p. 3169-3184 16 p.

Research output: Contribution to journalArticle

tRNA Methyltransferases
S-Adenosylmethionine
Methylation
Accessories
Rubredoxins
1 Citation (Scopus)

A New Microbial Pathway for Organophosphonate Degradation Catalyzed by Two Previously Misannotated Non-Heme-Iron Oxygenases

Rajakovich, L. J., Pandelia, M. E., Mitchell, A. J., Chang, W. C., Zhang, B., Boal, A. K., Krebs, C. & Bollinger, J. M., Mar 26 2019, In : Biochemistry. 58, 12, p. 1627-1647 21 p.

Research output: Contribution to journalArticle

Organophosphonates
Oxygenases
Iron
Degradation
gamma-Butyrobetaine Dioxygenase
9 Citations (Scopus)

An N-nitrosating metalloenzyme constructs the pharmacophore of streptozotocin

Ng, T. L., Rohac, R., Mitchell, A. J., Boal, A. K. & Balskus, E. P., Feb 7 2019, In : Nature. 566, 7742, p. 94-99 6 p.

Research output: Contribution to journalLetter

Streptozocin
Iron
Synthetic Chemistry Techniques
Guanidine
Enzymes
3 Citations (Scopus)

An Ontology for Facilitating Discussion of Catalytic Strategies of RNA-Cleaving Enzymes

Bevilacqua, P. C., Harris, M. E., Piccirilli, J. A., Gaines, C., Ganguly, A., Kostenbader, K., Ekesan, Ş. & York, D. M., Jun 21 2019, In : ACS chemical biology. 14, 6, p. 1068-1076 9 p.

Research output: Contribution to journalReview article

RNA Cleavage
Catalytic RNA
Ontology
RNA
Enzymes
Dihydroxyacetone Phosphate
Quinolinic Acid
X ray crystallography
X Ray Crystallography
Phosphates
1 Citation (Scopus)

A Periplasmic Binding Protein for Pyrroloquinoline Quinone

Ho, J. V. & Cotruvo, Jr., J. A., Jun 11 2019, In : Biochemistry. 58, 23, p. 2665-2669 5 p.

Research output: Contribution to journalArticle

PQQ Cofactor
Periplasmic Binding Proteins
Methylobacterium extorquens
Carrier Proteins
Lanthanoid Series Elements
9 Citations (Scopus)
Lanthanoid Series Elements
Rare earth elements
Proteins
Methylobacterium extorquens
Sensors
3 Citations (Scopus)

A SNAP-tag fluorogenic probe mimicking the chromophore of the red fluorescent protein Kaede

Jung, K. H., Fares, M., Grainger, L. S., Wolstenholme, C. H., Hou, A., Liu, Y. & Zhang, X., Jan 1 2019, In : Organic and Biomolecular Chemistry. 17, 7, p. 1906-1915 10 p.

Research output: Contribution to journalArticle

SNAP
Chromophores
chromophores
proteins
probes

A stepwise mechanism for aqueous two-phase system formation in concentrated antibody solutions

Rogers, B. A., Rembert, K. B., Poyton, M. F., Okur, H. I., Kale, A. R., Yang, T., Zhang, J. & Cremer, P. S., Aug 6 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 32, p. 15784-15791 8 p.

Research output: Contribution to journalArticle

Open Access
Temperature
Antibodies
Gels
Suspensions
Proteins

Atomistic Characterization of Plasmonic Dimers in the Quantum Size Regime

Liu, P., Chulhai, D. V. & Jensen, L., Jun 6 2019, In : Journal of Physical Chemistry C. 123, 22, p. 13900-13907 8 p.

Research output: Contribution to journalArticle

Plasmons
plasmons
Dimers
dimers
Charge transfer

Atomistic electrodynamics simulations of plasmonic nanoparticles

Chen, X., Liu, P. & Jensen, L., Jul 3 2019, In : Journal of Physics D: Applied Physics. 52, 36, 363002.

Research output: Contribution to journalReview article

Electrodynamics
electrodynamics
Nanoparticles
nanoparticles
simulation
8 Citations (Scopus)

Bacterial FtsZ protein forms phase-separated condensates with its nucleoid-associated inhibitor SlmA

Monterroso, B., Zorrilla, S., Sobrinos-Sanguino, M., Robles-Ramos, M. A., López-Álvarez, M., Margolin, W., Keating, C. D. & Rivas, G., Jan 1 2019, In : EMBO Reports. 20, 1, e45946.

Research output: Contribution to journalArticle

Bacterial Proteins
Phase separation
Condensation
Bacterial Physiological Phenomena
Intracellular Space
3 Citations (Scopus)

Biochemical and Structural Characterization of XoxG and XoxJ and Their Roles in Lanthanide-Dependent Methanol Dehydrogenase Activity

Featherston, E. R., Rose, H. R., McBride, M. J., Taylor, E. M., Boal, A. K. & Cotruvo, Jr., J. A., Sep 16 2019, In : ChemBioChem. 20, 18, p. 2360-2372 13 p.

Research output: Contribution to journalArticle

Lanthanoid Series Elements
Assays
Methylobacterium extorquens
Crystal structure
Periplasmic Binding Proteins

Bioinspired Mineralizing Microenvironments Generated by Liquid-Liquid Phase Coexistence

Rowland, A. T., Cacace, D. N., Pulati, N., Gulley, M. L. & Keating, C. D., Jan 1 2019, (Accepted/In press) In : Chemistry of Materials.

Research output: Contribution to journalArticle

Calcium Carbonate
Calcium carbonate
Emulsions
Liquids
Biochemistry
2 Citations (Scopus)
S-Adenosylmethionine
Biosynthesis
Peptides
C1 peptide
Acids
1 Citation (Scopus)

Catalytic Conversion of Ethanol to Liquid Hydrocarbons by Tin-Promoted Raney Nickel Supported on Alumina

Mandal, S. & Sen, A., Apr 22 2019, In : ACS Applied Energy Materials. 2, 4, p. 2398-2401 4 p.

Research output: Contribution to journalArticle

Tin
Aluminum Oxide
Hydrocarbons
Nickel
Ethanol
4 Citations (Scopus)

Cationic Gold(I) Diarylallenylidene Complexes: Bonding Features and Ligand Effects

Sorbelli, D., Nunes dos Santos Comprido, L., Knizia, G., Hashmi, A. S. K., Belpassi, L., Belanzoni, P. & Klein, J. E. M. N., Jul 2 2019, In : ChemPhysChem. 20, 13, p. 1671-1679 9 p.

Research output: Contribution to journalArticle

Open Access
Gold
gold
Ligands
ligands
Chemical shift
2 Citations (Scopus)

Cellular Concentrations of Nucleotide Diphosphate-Chelated Magnesium Ions Accelerate Catalysis by RNA and DNA Enzymes

Yamagami, R., Huang, R. & Bevilacqua, P. C., Sep 24 2019, In : Biochemistry. 58, 38, p. 3971-3979 9 p.

Research output: Contribution to journalArticle

Diphosphates
Catalysis
Magnesium
Nucleotides
RNA

Chapter 11: Collective Behaviour of Artificial Microswimmers in Response to Environmental Conditions

Altemose, A. & Sen, A., Jan 1 2019, Self-organized Motion: Physicochemical Design based on Nonlinear Dynamics. Lagzi, I., Pimienta, V., Suematsu, N. J., Nakata, S. & Kitahata, H. (eds.). 14 ed. Royal Society of Chemistry, p. 250-283 34 p. (RSC Theoretical and Computational Chemistry Series; vol. 2019-January, no. 14).

Research output: Chapter in Book/Report/Conference proceedingChapter

Biological systems
Fish

Characterization of a New Electron Donor-Acceptor Dyad in Conventional Solvents and Ionic Liquids

Saladin, M., Rumble, C. A., Wagle, D. V., Baker, G. A. & Maroncelli, M., Nov 7 2019, In : Journal of Physical Chemistry B. 123, 44, p. 9395-9407 13 p.

Research output: Contribution to journalArticle

Ionic Liquids
Ionic liquids
electron transfer
Electrons
liquids
4 Citations (Scopus)

Charge Transfer Dynamics in Aqueous Dye-Sensitized Photoelectrochemical Cells: Implications for Water Splitting Efficiency

Xu, P. & Mallouk, T. E., Oct 1 2019, In : Journal of Physical Chemistry C. 123, 1, p. 299-305 7 p.

Research output: Contribution to journalArticle

Photoelectrochemical cells
water splitting
Charge transfer
Coloring Agents
Dyes

C-O Bond Dissociation and Induced Chemical Ionization Using High Energy (CO2)n+ Gas Cluster Ion Beam

Tian, H., Maciążek, D., Postawa, Z., Garrison, B. J. & Winograd, N., Mar 15 2019, In : Journal of the American Society for Mass Spectrometry. 30, 3, p. 476-481 6 p.

Research output: Contribution to journalArticle

Ion beams
Ionization
Gases
Ions
Oxygen
1 Citation (Scopus)

Competing Polar and Antipolar Structures in the Ruddlesden-Popper Layered Perovskite Li2SrNb2O7

Uppuluri, R., Akamatsu, H., Sen Gupta, A., Wang, H., Brown, C. M., Agueda Lopez, K. E., Alem, N., Gopalan, V. & Mallouk, T. E., Jun 25 2019, In : Chemistry of Materials. 31, 12, p. 4418-4425 8 p.

Research output: Contribution to journalArticle

Perovskite
Antiferroelectric materials
Ferroelectricity
Neutron diffraction
Synchrotrons

Concise Synthesis of a Potential 5-Lipoxygenase Activating Protein (FLAP) Inhibitor and Its Analogs through Late-Stage Alkene Dicarbofunctionalization

Kc, S., Dhungana, R. K., Aryal, V. & Giri, R., Aug 16 2019, In : Organic Process Research and Development. 23, 8, p. 1686-1694 9 p.

Research output: Contribution to journalArticle

5-Lipoxygenase-Activating Protein Inhibitors
5-Lipoxygenase-Activating Proteins
Alkenes
inhibitors
alkenes
4 Citations (Scopus)

Conjugated Block Copolymers as Model Systems to Examine Mechanisms of Charge Generation in Donor–Acceptor Materials

Aplan, M. P., Grieco, C., Lee, Y., Munro, J. M., Lee, W., Gray, J. L., Seibers, Z. D., Kuei, B., Litofsky, J. H., Kilbey, S. M., Wang, Q., Dabo, I., Asbury, J. B. & Gomez, E. D., Jan 4 2019, In : Advanced Functional Materials. 29, 1, 1804858.

Research output: Contribution to journalArticle

block copolymers
Block copolymers
Charge transfer
charge transfer
Nanoparticles
1 Citation (Scopus)

Controlled Rapid Formation of Polyurethane at 700 K: Thermodynamic and Kinetic Consequences of Extreme Photothermal Heating

Van Burns, E. N. & Lear, B. J., Jun 13 2019, In : Journal of Physical Chemistry C. 123, 23, p. 14774-14780 7 p.

Research output: Contribution to journalArticle

Polyurethanes
Thermodynamics
Heating
thermodynamics
Kinetics

Coordinated Network Changes across the Catalytic Cycle of Alpha Tryptophan Synthase

O'Rourke, K. F., Sahu, D., Bosken, Y. K., D'Amico, R. N., Chang, C. E. A. & Boehr, D. D., Sep 3 2019, In : Structure. 27, 9, p. 1405-1415.e5

Research output: Contribution to journalArticle

Tryptophan Synthase
Proteins
Enzymes
Amino Acids
Molecular Dynamics Simulation
Open Access
Physical chemistry
Proton transfer
physical chemistry
Ground state
Pumps
Catalytic RNA
Nucleotides
Catalysis
Molecules

Correction to: Molecular orbital gating surface-enhanced raman scattering (ACS Nano (2018) 12:11 (11229-11235) DOI: 10.1021/acsnano.8b05826)

Guo, C., Chen, X., Ding, S. Y., Mayer, D., Wang, Q., Zhao, Z., Ni, L., Liu, H., Lee, T., Xu, B. & Xiang, D., Apr 23 2019, In : ACS nano. 13, 4, 1 p.

Research output: Contribution to journalComment/debate

Molecular orbitals
Raman scattering
molecular orbitals
Raman spectra
files

Correction to: Vibrational Probe of the Structural Origins of Slow Recombination in Halide Perovskites (The Journal of Physical Chemistry C (2019) 123:12 (7061-7073) DOI: 10.1021/acs.jpcc.9b00555)

Munson, K. T., Doucette, G. S., Kennehan, E. R., Swartzfager, J. R. & Asbury, J. B., Sep 5 2019, In : Journal of Physical Chemistry C. 123, 35, 1 p.

Research output: Contribution to journalComment/debate

Physical chemistry
physical chemistry
perovskites
halides
probes
2 Citations (Scopus)

Correlated spatially resolved two-dimensional electronic and linear absorption spectroscopy

Steves, M. A., Zheng, H. & Knappenberger, K. L., Apr 15 2019, In : Optics Letters. 44, 8, p. 2117-2120 4 p.

Research output: Contribution to journalArticle

absorption spectroscopy
spatial resolution
temporal resolution
electronics
optical spectrum
4 Citations (Scopus)

Counter Cations Affect Transport in Aqueous Hydroxide Solutions with Ion Specificity

Drexler, C. I., Miller, T. C., Rogers, B. A., Li, Y. C., Daly, C. A., Yang, T., Corcelli, S. A. & Cremer, P. S., May 1 2019, In : Journal of the American Chemical Society. 141, 17, p. 6930-6936 7 p.

Research output: Contribution to journalArticle

Cations
Protons
Lithium
Positive ions
Sodium
Open Access
Crystal structure
Atoms
crystal structure
rings
phosphazene

Defect-mediated selective hydrogenation of nitroarenes on nanostructured WS2

Sun, Y., Darling, A. J., Li, Y., Fujisawa, K., Holder, C. F., Liu, H., Janik, M. J., Terrones, M. & Schaak, R. E., Jan 1 2019, In : Chemical Science. 10, 44, p. 10310-10317 8 p.

Research output: Contribution to journalArticle

Open Access
Hydrogenation
Transition metals
Sulfur
Functional groups
Vacancies
1 Citation (Scopus)

Design of highly active double-pseudoknotted ribozymes: A combined computational and experimental study

Yamagami, R., Kayedkhordeh, M., Mathews, D. H. & Bevilacqua, P. C., Jan 10 2019, In : Nucleic acids research. 47, 1, p. 29-42 14 p.

Research output: Contribution to journalArticle

Catalytic RNA
RNA Folding
Riboswitch
RNA
Synthetic Biology
2 Citations (Scopus)

Direct Single Molecule Imaging of Enhanced Enzyme Diffusion

Xu, M., Ross, J. L., Valdez, L. & Sen, A., Sep 17 2019, In : Physical Review Letters. 123, 12, 128101.

Research output: Contribution to journalArticle

enzymes
molecules
fluorescence
diffusion coefficient
spectroscopy

Do Diradicals Behave like Radicals?

Stuyver, T., Chen, B., Zeng, T., Geerlings, P., De Proft, F. & Hoffmann, R., Nov 13 2019, In : Chemical Reviews. 119, 21, p. 11291-11351 61 p.

Research output: Contribution to journalReview article

Dimerization
Interchanges
Molecular orbitals
Ground state
Electronic structure
2 Citations (Scopus)

Domain topology, stability, and translation speed determine mechanical force generation on the ribosome

Leininger, S. E., Trovato, F., Nissley, D. A. & O’Brien, E. P., Jan 1 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 12, p. 5523-5532 10 p.

Research output: Contribution to journalArticle

Ribosomes
Proteins
Statistical Models
Proteome
Phenotype
1 Citation (Scopus)

Doubly resonant sum frequency spectroscopy of mixed photochromic isomers on surfaces reveals conformation-specific vibronic effects

Raab, M., Becca, J. C., Heo, J., Lim, C. K., Baev, A., Jensen, L., Prasad, P. N. & Velarde, L., Mar 21 2019, In : Journal of Chemical Physics. 150, 11, 114704.

Research output: Contribution to journalArticle

Isomers
Conformations
Natural frequencies
isomers
Spectroscopy
5 Citations (Scopus)

Dual approach for effective potentials that accurately model structure and energetics

Lebold, K. M. & Noid, W. G., Jun 21 2019, In : Journal of Chemical Physics. 150, 23, 234107.

Research output: Contribution to journalArticle

Open Access
Model structures
degrees of freedom
Degrees of freedom (mechanics)
Potential energy
Nuclear energy
Specific heat
Thermodynamics
Temperature
specific heat
thermodynamics
5 Citations (Scopus)

Effect of Micromorphology on Alkaline Polymer Electrolyte Stability

Han, J., Pan, J., Chen, C., Wei, L., Wang, Y., Pan, Q., Zhao, N., Xie, B., Xiao, L., Lu, J. & Zhuang, L., Jan 9 2019, In : ACS Applied Materials and Interfaces. 11, 1, p. 469-477 9 p.

Research output: Contribution to journalArticle

Chemical stability
Electrolytes
Polymers
Cations
Positive ions

Energy and Enzyme Activity Landscapes of Yeast Chorismate Mutase at Cellular Concentrations of Allosteric Effectors

Gorman, S. D. & Boehr, D. D., Jan 1 2019, (Accepted/In press) In : Biochemistry.

Research output: Contribution to journalArticle

Chorismate Mutase
Enzyme activity
Yeast
Tyrosine
Tryptophan