Yufeng Tong

About

Structural biologist (NMR and XRD) by training. An experimental biochemist. Research interest in protein interaction, ubiquitination, assay development, drug discovery, and protein engineering.

Work

University of Windsor
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Associate Professor

Canada

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University of Windsor
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Assistant Professor (Tenure-track)

Canada

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University of Toronto
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Assistant Professor (Status-only)

Canada

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Education

Institute of Biophysics Chinese Academy of Sciences
China

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Tsinghua University
China

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B.Sc

Publications

Evaluating and optimizing Acid-pH and Direct Lysis RNA extraction for SARS-CoV-2 RNA detection in whole saliva

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Scientific Reports

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The Pleiotropic Ubiquitin-Specific Peptidase 16 and Its Many Substrates

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Cells

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Actionable wastewater surveillance: application to a university residence hall during the transition between Delta and Omicron resurgences of COVID-19

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Frontiers in Public Health

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The Pleiotropic Ubiquitin-Specific Peptidase 16 and Its Many Substrates

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Cells

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On the Study of Deubiquitinases: Using the Right Tools for the Job

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Biomolecules

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Building a Versatile Platform for the Detection of Protein–Protein Interactions Based on Organic Field-Effect Transistors

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ACS Applied Electronic Materials

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Human Diacylglycerol Kinase ε N-Terminal Segment Regulates the Phosphatidylinositol Cycle, Controlling the Rate but Not the Acyl Chain Composition of Its Lipid Intermediates

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ACS Chemical Biology

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On the Study of Deubiquitinases: Using the Right Tools for the Job

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Biomolecules

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Averting an Outbreak of SARS-CoV-2 in a University Residence Hall through Wastewater Surveillance.

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Microbiology spectrum

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Structural Insight into Chromatin Recognition by Multiple Domains of the Tumor Suppressor RBBP1.

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Journal of molecular biology

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Structural and functional characterization of ubiquitin variant inhibitors for the JAMM-family deubiquitinases STAMBP and STAMBPL1.

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The Journal of biological chemistry

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Crystal structures of REF6 and its complex with DNA reveal diverse recognition mechanisms.

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Cell discovery

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Multiple direct interactions of TBP with the MYC oncoprotein.

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Nature structural & molecular biology

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Regulation of DGKε Activity and Substrate Acyl Chain Specificity by Negatively Charged Phospholipids.

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Biophysical journal

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Target highlights in CASP13: Experimental target structures through the eyes of their authors.

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Proteins

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Resonance assignments for the tandem PWWP-ARID domains of human RBBP1

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Biomolecular NMR Assignments

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Crystal structure and activity-based labeling reveal the mechanisms for linkage-specific substrate recognition by deubiquitinase USP9X.

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Proceedings of the National Academy of Sciences of the United States of America

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UbiHub: a data hub for the explorers of ubiquitination pathways.

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Bioinformatics (Oxford, England)

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MYC Protein Interactome Profiling Reveals Functionally Distinct Regions that Cooperate to Drive Tumorigenesis.

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Molecular cell

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Architecture of the native major royal jelly protein 1 oligomer.

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Nature communications

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The tuberous sclerosis complex subunit TBC1D7 is stabilized by Akt phosphorylation-mediated 14-3-3 binding.

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The Journal of biological chemistry

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The Combination of Human Urinary Kallidinogenase and Mild Hypothermia Protects Adult Rats Against Hypoxic-Ischemic Encephalopathy-Induced Injury by Promoting Angiogenesis and Regeneration.

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Frontiers in aging neuroscience

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The combination of Human Urinary Kallidinogenase and mild hypothermia protects adult rats against hypoxic-ischemic encephalopathy-induced injury by promoting angiogenesis and regeneration

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Frontiers in Aging Neuroscience

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Proteostasis in Huntington's disease: disease mechanisms and therapeutic opportunities.

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Acta pharmacologica Sinica

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Proteostasis in Huntington's disease: Disease mechanisms and therapeutic opportunities

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Acta Pharmacologica Sinica

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The substrate binding domains of human SIAH E3 ubiquitin ligases are now crystal clear

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Biochimica et Biophysica Acta (BBA) - General Subjects

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Generation and Validation of Intracellular Ubiquitin Variant Inhibitors for USP7 and USP10.

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Journal of molecular biology

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Comprehensive Analysis of the Human SH3 Domain Family Reveals a Wide Variety of Non-canonical Specificities.

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Structure (London, England : 1993)

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Role of remodeling and spacing factor 1 in histone H2A ubiquitination-mediated gene silencing.

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Proceedings of the National Academy of Sciences of the United States of America

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TFG facilitates outer coat disassembly on COPII transport carriers to promote tethering and fusion with ER-Golgi intermediate compartments.

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Proceedings of the National Academy of Sciences of the United States of America

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Human apo-SRP72 and SRP68/72 complex structures reveal the molecular basis of protein translocation.

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Journal of molecular cell biology

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Characterizing Plexin GTPase Interactions Using Gel Filtration, Surface Plasmon Resonance Spectrometry, and Isothermal Titration Calorimetry.

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Methods in molecular biology (Clifton, N.J.)

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Structural Basis of the Recruitment of Ubiquitin-specific Protease USP15 by Spliceosome Recycling Factor SART3

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Journal of Biological Chemistry

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System-Wide Modulation of HECT E3 Ligases with Selective Ubiquitin Variant Probes

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Molecular Cell

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New Insights into the RNA-Binding and E3 Ubiquitin Ligase Activities of Roquins

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Scientific Reports

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A Methylation-Phosphorylation Switch Determines Sox2 Stability and Function in ESC Maintenance or Differentiation

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Molecular Cell

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Crystal Structures of the Human RNA Demethylase Alkbh5 Reveal Basis for Substrate Recognition

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Journal of Biological Chemistry

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Salvage or Recovery of Failed Targets by In Situ Proteolysis

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Structural Genomics and Drug Discovery: Methods and Protocols

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book

Crystal structure of human multiple copies in T-cell lymphoma-1 oncoprotein

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Proteins-Structure Function and Bioinformatics

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Crystal Structures of the Tetratricopeptide Repeat Domains of Kinesin Light Chains: Insight into Cargo Recognition Mechanisms

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Plos One

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IQGAP proteins reveal an atypical phosphoinositide (aPI) binding domain with a pseudo C2 domain fold.

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The Journal of biological chemistry

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Structural Basis of Rnd1 Binding to Plexin Rho GTPase Binding Domains (RBDs)

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Journal of Biological Chemistry

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Structural Basis for Specific Binding of Human MPP8 Chromodomain to Histone H3 Methylated at Lysine 9

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Plos One

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Bardet-Biedl Syndrome-associated Small GTPase ARL6 (BBS3) Functions at or near the Ciliary Gate and Modulates Wnt Signaling

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Journal of Biological Chemistry

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Phosphorylation-independent dual-site binding of the FHA domain of KIF13 mediates phosphoinositide transport via centaurin alpha 1

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Proceedings of the National Academy of Sciences of the United States of America

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Crystal Structure of the N-Acetylmannosamine Kinase Domain of GNE

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Plos One

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Structure and Function of the Intracellular Region of the Plexin-B1 Transmembrane Receptor

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Journal of Biological Chemistry

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Crystal structure of human eIF5A1: Insight into functional similarity of human eIF5A1 and eIF5A2

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Proteins-Structure Function and Bioinformatics

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A Stabilizing alpha/beta-Hydrophobic Core Greatly Contributes to Hyperthermostability of Archaeal [P62A]Ssh10b

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Biochemistry

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Insights into oncogenic mutations of plexin-B1 based on the solution structure of the rho GTPase binding domain

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Structure

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First crystallographic models of human TBC domains in the context of a family-wide structural analysis

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Proteins-Structure Function and Bioinformatics

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In situ proteolysis for protein crystallization and structure determination

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Nature Methods

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Restricted backbone conformational and motional flexibilities of loops containing peptidyl-proline bonds dominate the enzyme activity of staphylococcal nuclease

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Biochemistry

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Binding of Rac1, Rnd1, and RhoD to a novel Rho GTPase interaction motif destabilizes dimerization of the plexin-B1 effector domain

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Journal of Biological Chemistry

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Probing the folding capacity and residual structures in 1-79 residues fragment of staphylococcal nuclease by biophysical and NMR methods

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Biochimie

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Cis-trans heterogeneity of Gln30-Pro31 peptide bond determines whether a 79-residue fragment of staphylococcal nuclease self-associates

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Biochemical and Biophysical Research Communications

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Letter to the editor: H-1, N-15 and C-13 Resonance assignments and secondary structure determination reveal that the minimal Rac1 GTPase binding domain of plexin-B1 has a ubiquitin fold

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Journal of Biomolecular Nmr

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When monomers are preferred: a strategy for the identification and disruption of weakly oligomerized proteins.

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Structure (London, England : 1993)

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Cisltrans heterogeneity of Gln30-Pro31 peptide bond determines whether a 79-residue fragment of staphylococcal nuclease self-associates

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Biochemical and Biophysical Research Communications

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Activity difference between alpha-COOH and beta-COOH in N-phosphorylaspartic acids

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Journal of Organic Chemistry

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Structural analysis of zinc-substituted cytochrome c

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Journal of Biological Inorganic Chemistry

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NMR studies of the relationship between the changes of membrane lipids and the cisplatin-resistance of A549/DDP cells.

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Cancer cell international

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Structural analysis of zinc-substituted cytochrome c.

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Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry

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Two conformations of archaeal Ssh10b - The origin of its temperature-dependent interaction with DNA

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Journal of Biological Chemistry

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1H, 15N, and 13C resonance assignments and secondary structure of the Ssh10b from hyperthermophilic archaeon Sulfolobus shibatae.

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Journal of biomolecular NMR

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Orientation of the peptide formation of N-phosphoryl amino acids in solution

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Chinese Science Bulletin

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Yufeng Tong