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2019

Mechanistic Studies of the Kinase Domains of Class IV Lanthipeptide Synthetases

Hegemann, J. D., Shi, L., Gross, M. L. & Van Der Donk, W. A., Jun 5 2019, In : ACS chemical biology. 14, 7, p. 1583-1592 10 p.

Research output: Contribution to journalArticle

Ligases
Phosphotransferases
Protein Sorting Signals
Proteins
Enzymes

Microcin J25 inhibits ubiquinol oxidase activity of purified cytochrome bd-I from Escherichia coli

Galván, A. E., Chalón, M. C., Ríos Colombo, N. S., Schurig-Briccio, L. A., Sosa-Padilla, B., Gennis, R. B. & Bellomio, A., May 2019, In : Biochimie. 160, p. 141-147 7 p.

Research output: Contribution to journalArticle

Cytochromes
Escherichia coli
Peptides
Cyanides
Electron Transport

Microscopic Characterization of GRP1 PH Domain Interaction with Anionic Membranes

Pant, S. & Tajkhorshid, E., Jan 1 2019, (Accepted/In press) In : Journal of Computational Chemistry. 41, 6, p. 489-499 11 p.

Research output: Contribution to journalArticle

Homology
Membrane
Membranes
Interaction
Lipids

Modular Syntheses of Phenanthroindolizidine Natural Products

Jo, Y. I., Burke, M. D. & Cheon, C. H., Jun 7 2019, In : Organic Letters. 21, 11, p. 4201-4204 4 p.

Research output: Contribution to journalArticle

Boronic Acids
Vanadium
Biological Products
Bromides
Alkaloids

Molecular basis for enantioselective herbicide degradation imparted by aryloxyalkanoate dioxygenases in transgenic plants

Chekan, J. R., Ongpipattanakul, C., Wright, T. R., Zhang, B., Martin Bollinger, J., Rajakovich, L. J., Krebs, C., Cicchillo, R. M. & Nair, S. K., Jan 1 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 27, p. 13299-13304 6 p.

Research output: Contribution to journalArticle

Open Access
Dioxygenases
Genetically Modified Plants
Herbicides
2,4-Dichlorophenoxyacetic Acid
Indoleacetic Acids

Molecular Basis of Bacillus subtilis ATCC 6633 Self-Resistance to the Phosphono-oligopeptide Antibiotic Rhizocticin

Petronikolou, N., Ortega, M. A., Borisova, S. A., Nair, S. K. & Metcalf, W. W., Apr 19 2019, In : ACS chemical biology. 14, 4, p. 742-750 9 p.

Research output: Contribution to journalArticle

Oligopeptides
Bacilli
Bacillus subtilis
Anti-Bacterial Agents
Threonine

Multiple cancer-specific antigens are targeted by a chimeric antigen receptor on a single cancer cell

He, Y., Schreiber, K., Wolf, S. P., Wen, F., Steentoft, C., Zerweck, J., Steiner, M., Sharma, P., Michael Shepard, H., Posey, A., June, C. H., Mandel, U., Clausen, H., Leisegang, M., Meredith, S. C., Kranz, D. M. & Schreiber, H., Oct 17 2019, In : JCI Insight. 4, 21, e130416.

Research output: Contribution to journalArticle

Open Access
Antigen Receptors
Antigens
Neoplasms
T-Cell Antigen Receptor Specificity
Tumor Escape

Multivalent Polymer-Peptide Conjugates: A General Platform for Inhibiting Amyloid Beta Peptide Aggregation

Jiang, X., Halmes, A. J., Licari, G., Smith, J. W., Song, Y., Moore, E. G., Chen, Q., Tajkhorshid, E., Rienstra, C. M. & Moore, J. S., Oct 15 2019, In : ACS Macro Letters. 8, 10, p. 1365-1371 7 p.

Research output: Contribution to journalArticle

Amyloid beta-Peptides
Peptides
Polymers
Agglomeration
Ligands

Nanoscale monitoring of mitochondria and lysosome interactions for drug screening and discovery

Chen, Q., Shao, X., Tian, Z., Chen, Y., Mondal, P., Liu, F., Wang, F., Ling, P., He, W., Zhang, K., Guo, Z. & Diao, J., Jan 1 2019, In : Nano Research.

Research output: Contribution to journalArticle

Mitochondria
Screening
Monitoring
Pharmaceutical Preparations
Cells

NMR analysis of free and lipid nanodisc anchored CEACAM1 membrane proximal peptides with Ca 2+ /CaM

Ghazarian, H., Hu, W., Mao, A., Nguyen, T., Vaidehi, N., Sligar, S. & Shively, J. E., Apr 1 2019, In : Biochimica et Biophysica Acta - Biomembranes. 1861, 4, p. 787-797 11 p.

Research output: Contribution to journalArticle

Nuclear magnetic resonance
Membranes
Lipids
Actins
Peptides

Nonribosomal Peptide Extension by a Peptide Amino-Acyl tRNA Ligase

Zhang, Z. & Van Der Donk, W. A., Jan 1 2019, (Accepted/In press) In : Journal of the American Chemical Society.

Research output: Contribution to journalArticle

Amino Acyl-tRNA Synthetases
peptide
Peptides
Amino acids
RNA, Transfer, Cys

Nontranslational function of leucyl-tRNA synthetase regulates myogenic differentiation and skeletal muscle regeneration

Son, K., You, J. S., Yoon, M. S., Dai, C., Kim, J. H., Khanna, N., Banerjee, A., Martinis, S. A., Han, G., Han, J. M., Kim, S. & Chen, J., May 1 2019, In : Journal of Clinical Investigation. 129, 5, p. 2088-2093 6 p.

Research output: Contribution to journalArticle

Open Access
Amino Acyl-tRNA Synthetases
Regeneration
Skeletal Muscle
Muscle Development
Transfer RNA Aminoacylation

Novel functions of the ubiquitin-independent proteasome system in regulating Xenopus germline development

Hwang, H., Jin, Z., Krishnamurthy, V. V., Saha, A., Klein, P. S., Garcia, B., Mei, W., King, M. L., Zhang, K. & Yang, J., Apr 15 2019, In : Development (Cambridge). 146, 8, dev172700.

Research output: Contribution to journalArticle

Open Access
Proteasome Endopeptidase Complex
Ubiquitin
Xenopus
embryo
vertebrate

Novel lactate dehydrogenase inhibitors with in vivo efficacy against Cryptosporidium parvum

Li, K., Nader, S. M., Zhang, X., Ray, B. C., Kim, C. Y., Das, A. & Witola, W. H., Jul 2019, In : PLoS pathogens. 15, 7, e1007953.

Research output: Contribution to journalArticle

Open Access
Cryptosporidium parvum
L-Lactate Dehydrogenase
Cryptosporidium
Infection
Oocysts

Novel metabolic pathways and regulons for hexuronate utilization in Proteobacteria

Bouvier, J. T., Sernova, N. V., Ghasempur, S., Rodionova, I. A., Vetting, M. W., Al-Obaidi, N. F., Almo, S. C., Gerlt, J. A. & Rodionov, D. A., Jan 1 2019, In : Journal of bacteriology. 201, 2, e00431-18.

Research output: Contribution to journalArticle

Regulon
Proteobacteria
Metabolic Networks and Pathways
Ralstonia pickettii
Enzymes

O-Methyltransferase-Mediated Incorporation of a β-Amino Acid in Lanthipeptides

Acedo, J. Z., Bothwell, I. R., An, L., Trouth, A., Frazier, C. & Van Der Donk, W. A., Jan 1 2019, In : Journal of the American Chemical Society. 141, 42, p. 16790-16801 12 p.

Research output: Contribution to journalArticle

Methyltransferases
Isoaspartic Acid
peptide
Peptides
Amino acids

Optogenetic Delineation of Receptor Tyrosine Kinase Subcircuits in PC12 Cell Differentiation

Khamo, J. S., Krishnamurthy, V. V., Chen, Q., Diao, J. & Zhang, K., Mar 21 2019, In : Cell chemical biology. 26, 3, p. 400-410.e3

Research output: Contribution to journalArticle

Optogenetics
PC12 Cells
Receptor Protein-Tyrosine Kinases
Cell Differentiation
Nerve Growth Factor

Phosphatidic acid induces conformational changes in Sec18 protomers that prevent SNARE priming

Starr, M. L., Sparks, R. P., Arango, A. S., Hurst, L. R., Zhao, Z., Lihan, M., Jenkins, J. L., Tajkhorshid, E. & Fratti, R. A., Jan 1 2019, In : Journal of Biological Chemistry. 294, 9, p. 3100-3116 17 p.

Research output: Contribution to journalArticle

SNARE Proteins
Phosphatidic Acids
Protein Subunits
Membranes
N-Ethylmaleimide-Sensitive Proteins

Phosphatidylinositol 3,5-bisphosphate regulates the transition between trans-SNARE complex formation and vacuole membrane fusion

Miner, G. E., Sullivan, K. D., Guo, A., Jones, B. C., Hurst, L. R., Ellis, E. C., Starr, M. L. & Fratti, R., Jan 15 2019, In : Molecular biology of the cell. 30, 2, p. 201-208 8 p.

Research output: Contribution to journalArticle

SNARE Proteins
Membrane Fusion
Phosphatidylinositols
Vacuoles
Lipids

PIP2 Influences the Conformational Dynamics of Membrane-Bound KRAS4b

McLean, M. A., Stephen, A. G. & Sligar, S. G., Aug 20 2019, In : Biochemistry. 58, 33, p. 3537-3545 9 p.

Research output: Contribution to journalArticle

Phosphatidylserines
Membranes
Lipids
Phosphatidylinositols
Phospholipids

Polymorphisms of CYP2C8 alter first-electron transfer kinetics and increase catalytic uncoupling

Arnold, W. R., Zelasko, S., Meling, D. D., Sam, K. & Das, A., Sep 2 2019, In : International journal of molecular sciences. 20, 18, 4626.

Research output: Contribution to journalArticle

Open Access
cytochromes
polymorphism
Polymorphism
Cytochrome P-450 Enzyme System
electron transfer

Pro-Nifuroxazide Self-Assembly Leads to Triggerable Nanomedicine for Anti-cancer Therapy

Misra, S. K., Wu, Z., Ostadhossein, F., Ye, M., Boateng, K., Schulten, K., Tajkhorshid, E. & Pan, D., May 22 2019, In : ACS Applied Materials and Interfaces. 11, 20, p. 18074-18089 16 p.

Research output: Contribution to journalArticle

Medical nanotechnology
Self assembly
Nanoparticles
Prodrugs
Phosphorylation

Protein kinase C-α is upregulated by IMP1 in melanoma and is linked to poor survival

Mahapatra, L., Andruska, N., Mao, C., Gruber, S. B., Johnson, T. M., Fullen, D. R., Raskin, L. & Shapiro, D. J., Oct 1 2019, In : Melanoma research. 29, 5, p. 539-543 5 p.

Research output: Contribution to journalArticle

Protein Kinase C
Melanoma
Survival
Messenger RNA
Insulin-Like Growth Factor Binding Protein 2

Rational Design of a Red Fluorescent Sensor for ALDH1A1 Displaying Enhanced Cellular Uptake and Reactivity

Bearrood, T. E., Aguirre-Figueroa, G. & Chan, J., Jan 1 2019, (Accepted/In press) In : Bioconjugate Chemistry.

Research output: Contribution to journalArticle

Aldehyde Dehydrogenase
Stem cells
Aldehydes
Stem Cells
Sensors

Reiterative synthesis by the ribosome and recognition of the N-terminal formyl group by biosynthetic machinery contribute to evolutionary conservation of the length of antibiotic microcin c peptide precursor

Zukher, I., Pavlov, M., Tsibulskaya, D., Kulikovsky, A., Zyubko, T., Bikmetov, D., Serebryakova, M., Nair, S. K., Ehrenberg, M., Dubiley, S. & Severinova, K., Mar 1 2019, In : mBio. 10, 2, e00768-19.

Research output: Contribution to journalArticle

Open Access
Ribosomes
Anti-Bacterial Agents
Peptides
Amino Acids
Operon

Repurposing Protein Degradation for Optogenetic Modulation of Protein Activities

Mondal, P., Krishnamurthy, V. V., Sharum, S. R., Haack, N., Zhou, H., Cheng, J., Yang, J. & Zhang, K., Nov 15 2019, In : ACS synthetic biology. 8, 11, p. 2585-2592 8 p.

Research output: Contribution to journalArticle

Optogenetics
Proteolysis
Modulation
Proteins
Degradation

Simultaneous photoacoustic imaging of intravascular and tissue oxygenation

Chen, M., Knox, H. J., Tang, Y., Liu, W., Nie, L., Chan, J. & Yao, J., Aug 1 2019, In : Optics Letters. 44, 15, p. 3773-3776 4 p.

Research output: Contribution to journalArticle

oxygenation
hypoxia
photoacoustic microscopy
brain
oxygen

Single-vesicle measurement of protein-induced membrane tethering

Cai, B., Yu, L., Sharum, S. R., Zhang, K. & Diao, J., May 1 2019, In : Colloids and Surfaces B: Biointerfaces. 177, p. 267-273 7 p.

Research output: Contribution to journalArticle

tethering
Membrane Proteins
membranes
proteins
Proteins

Steric complementarity directs sequence promiscuous leader binding in RiPP biosynthesis

Chekan, J. R., Ongpipattanakul, C. & Nair, S. K., Nov 26 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 48, p. 24049-24055 7 p.

Research output: Contribution to journalArticle

Peptides
Protein Sorting Signals
Enzymes
Post Translational Protein Processing
Biological Products

Structural architecture of a dimeric class C GPCR based on co-trafficking of sweet taste receptor subunits

Park, J., Selvam, B., Sanematsu, K., Shigemura, N., Shukla, D. & Procko, E., Jan 1 2019, In : Journal of Biological Chemistry. 294, 13, p. 4759-4774 16 p.

Research output: Contribution to journalArticle

G-Protein-Coupled Receptors
Dimerization
Dimers
Cysteine
Cells

Structural Insights into the Lipid A Transport Pathway in MsbA

Padayatti, P. S., Lee, S. C., Stanfield, R. L., Wen, P. C., Tajkhorshid, E., Wilson, I. A. & Zhang, Q., Jul 2 2019, In : Structure. 27, 7, p. 1114-1123.e3

Research output: Contribution to journalArticle

Lipid A
ATP-Binding Cassette Transporters
Protein Transport
Salmonella typhimurium
Gram-Negative Bacteria

T-cell receptors engineered de novo for peptide specificity can mediate optimal t-cell activity without self cross-reactivity

Sharma, P., Harris, D. T., Stone, J. D. & Kranz, D. M., Jan 1 2019, In : Cancer Immunology Research. 7, 12, p. 2025-2035 11 p.

Research output: Contribution to journalArticle

T-Cell Antigen Receptor
HLA-A2 Antigen
Peptides
T-Lymphocytes
CD8 Antigens

T cell receptors for gene transfer in adoptive T cell therapy

Sharma, P. & Kranz, D. M., Jan 1 2019, In : Critical Reviews in Immunology. 39, 2, p. 105-122 18 p.

Research output: Contribution to journalArticle

T-Cell Receptor Genes
Adoptive Transfer
Cell- and Tissue-Based Therapy
T-Lymphocytes
Antigen Receptors

Temperature-Independent Kinetic Isotope Effects as Evidence for a Marcus-like Model of Hydride Tunneling in Phosphite Dehydrogenase

Howe, G. W. & Van Der Donk, W. A., Oct 15 2019, In : Biochemistry. 58, 41, p. 4260-4268 9 p.

Research output: Contribution to journalArticle

Hydrides
Isotopes
Kinetics
Temperature
NAD

The EFI Web Resource for Genomic Enzymology Tools: Leveraging Protein, Genome, and Metagenome Databases to Discover Novel Enzymes and Metabolic Pathways

Zallot, R., Oberg, N. & Gerlt, J. A., Oct 15 2019, In : Biochemistry. 58, 41, p. 4169-4182 14 p.

Research output: Contribution to journalArticle

Open Access
Metagenome
Metabolic Networks and Pathways
Genes
Genome
Databases

The hydrodynamic motion of Nanodiscs

Camp, T., McLean, M., Kato, M., Cheruzel, L. & Sligar, S., May 2019, In : Chemistry and Physics of Lipids. 220, p. 28-35 8 p.

Research output: Contribution to journalArticle

Hydrodynamics
Membrane Proteins
Lipid bilayers
Lipid Bilayers
Membranes
Vitamin K 2
Cytochromes
Escherichia coli
Binding Sites
coenzyme Q10
Isomerases
Pseudomonas putida
isomerization
isomerases
soil bacteria

Tuning symmetry breaking charge separation in perylene bichromophores by conformational control

Aster, A., Licari, G., Zinna, F., Brun, E., Kumpulainen, T., Tajkhorshid, E., Lacour, J. & Vauthey, E., Jan 1 2019, In : Chemical Science. 10, 45, p. 10629-10639 11 p.

Research output: Contribution to journalArticle

Open Access
Perylene
Excited states
Crown Ethers
Tuning
Chromophores

Use of a scaffold peptide in the biosynthesis of amino acid-derived natural products

Ting, C. P., Funk, M. A., Halaby, S. L., Zhang, Z., Gonen, T. & Van Der Donk, W. A., Jul 19 2019, In : Science. 365, 6450, p. 280-284 5 p.

Research output: Contribution to journalArticle

Peptide Biosynthesis
Biological Products
Amino Acids
Peptides
RNA, Transfer, Amino Acyl

Use of the dehydrophos biosynthetic enzymes to prepare antimicrobial analogs of alaphosphin

Bougioukou, D. J., Ting, C. P., Peck, S. C., Mukherjee, S. & van der Donk, W. A., Jan 1 2019, In : Organic and Biomolecular Chemistry. 17, 4, p. 822-829 8 p.

Research output: Contribution to journalArticle

enzymes
analogs
Enzymes
RNA, Transfer, Leu
peptides
2018
Isotopes
isotope
kinetics
Kinetics
Hydrides
8-amino-7-oxononanoate synthase
coenzyme A
biotin
Biotin
Bacillus subtilis

Acoustogenic Probes: A New Frontier in Photoacoustic Imaging

Knox, H. J. & Chan, J. K. F., Nov 20 2018, In : Accounts of chemical research. 51, 11, p. 2897-2905 9 p.

Research output: Contribution to journalArticle

Photoacoustic effect
Polyamideimides
Imaging techniques
Tissue
Molecules

A "cross-stitched" peptide with improved helicity and proteolytic stability

Speltz, T. E., Mayne, C. G., Fanning, S. W., Siddiqui, Z., Tajkhorshid, E., Greene, G. L. & Moore, T. W., Jan 1 2018, In : Organic and Biomolecular Chemistry. 16, 20, p. 3702-3706 5 p.

Research output: Contribution to journalArticle

peptides
estrogens
Lactams
Peptides
X ray crystallography

A lanthipeptide library used to identify a protein-protein interaction inhibitor article

Yang, X., Lennard, K. R., He, C., Walker, M. C., Ball, A. T., Doigneaux, C., Tavassoli, A. & Van Der Donk, W. A., Apr 1 2018, In : Nature chemical biology. 14, 4, p. 375-380 6 p.

Research output: Contribution to journalArticle

Libraries
Proteins
Human Immunodeficiency Virus Proteins
Ligases
Biological Products

Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L.

Zhang, J., Zhang, X., Tang, H., Zhang, Q., Hua, X., Ma, X., Zhu, F., Jones, T., Zhu, X., Bowers, J., Wai, C. M., Zheng, C., Shi, Y., Chen, S., Xu, X., Yue, J., Nelson, D. R., Huang, L., Li, Z., Xu, H. & 88 others, Zhou, D., Wang, Y., Hu, W., Lin, J., Deng, Y., Pandey, N., Mancini, M., Zerpa, D., Nguyen, J. K., Wang, L., Yu, L., Xin, Y., Ge, L., Arro, J., Han, J. O., Chakrabarty, S., Pushko, M., Zhang, W., Ma, Y., Ma, P., Lv, M., Chen, F., Zheng, G., Xu, J., Yang, Z., Deng, F., Chen, X., Liao, Z., Zhang, X., Lin, Z., Lin, H., Yan, H., Kuang, Z., Zhong, W., Liang, P., Wang, G., Yuan, Y., Shi, J., Hou, J., Lin, J., Jin, J., Cao, P., Shen, Q., Jiang, Q., Zhou, P., Ma, Y., Zhang, X., Xu, R., Liu, J., Zhou, Y., Jia, H., Ma, Q., Qi, R., Zhang, Z., Fang, J., Fang, H., Song, J., Wang, M., Dong, G., Wang, G., Chen, Z., Ma, T., Liu, H., Dhungana, S. R., Huss, S. E., Yang, X., Sharma, A., Trujillo, J. H., Martinez, M. C., Hudson, M., Riascos, J. J., Schuler, M., Chen, L. Q., Braun, D. M., Li, L., Yu, Q., Wang, J., Wang, K., Schatz, M. C., Heckerman, D., Van Sluys, M. A., Souza, G. M., Moore, P. H., Sankoff, D., VanBuren, R., Paterson, A. H., Nagai, C. & Ming, R., Nov 1 2018, In : Nature Genetics. 50, 11, p. 1565-1573 9 p.

Research output: Contribution to journalArticle

Saccharum
Alleles
Genome
Chromosomes, Human, Pair 4
Disease Resistance

Alternative splicing rewires Hippo signaling pathway in hepatocytes to promote liver regeneration

Bangru, S., Arif, W., Seimetz, J., Bhate, A., Chen, J., Rashan, E. H., Carstens, R. P., Anakk, S. & Kalsotra, A., Oct 2018, In : Nature Structural and Molecular Biology. 25, 10, p. 928-939 12 p.

Research output: Contribution to journalArticle

Liver Regeneration
Alternative Splicing
Hepatocytes
Wounds and Injuries
Protein Isoforms

Antitumorigenic Properties of Omega-3 Endocannabinoid Epoxides

Roy, J., Watson, J. E., Hong, I. S., Fan, T. M. & Das, A., Jul 12 2018, In : Journal of Medicinal Chemistry. 61, 13, p. 5569-5579 11 p.

Research output: Contribution to journalArticle

Endocannabinoids
Epoxy Compounds
Cannabinoid Receptors
Docosahexaenoic Acids
Osteosarcoma

A Ratiometric Acoustogenic Probe for in Vivo Imaging of Endogenous Nitric Oxide

Reinhardt, C. J., Zhou, E. Y., Jorgensen, M. D., Partipilo, G. & Chan, J. K. F., Jan 24 2018, In : Journal of the American Chemical Society. 140, 3, p. 1011-1018 8 p.

Research output: Contribution to journalArticle

Photoacoustic effect
Nitric oxide
nitric oxide
Nitric Oxide
probe