T. Cordes

Modular Design and Scaffold-Synthesis of Multi-Functional Fluorophores for Targeted Cellular Imaging and Pyroptosis

This study designs and synthesizes functional fluorophores using a scaffold-based Ugi reaction, enabling detection of reactive-oxygen species and controlled subcellular localization, with some compounds showing pyroptosis-inducing activity in cancer cells.

Conserved Lysine in transmembrane helix 5 is key for the inner gating of the LAT transporter BasC

This study identifies a conserved lysine in TM5 of BasC as critical for cytoplasmic gate dynamics, showing its role in gating transitions and modulation by substrates and mutations.

Metabolic Deficiencies Underlie Plasmacytoid Dendritic Cell Exhaustion After Viral Infection

This study identifies LDHB as a key regulator of pDC IFN-I production and metabolic capacity during viral infection, linking metabolic deficiencies to pDC exhaustion and its dual role in immunity and pathology.

Determination of Absolute Intramolecular Distances in Proteins by Anomalous X-ray Scattering Interferometry

This study introduces AXSI for measuring absolute intramolecular distances in proteins, validated against single-molecule FRET, showing its effectiveness under various solution conditions.

Rapid and specific detection of single nanoparticles and viruses in microfluidic laminar flow via confocal fluorescence microscopy

This paper develops a flow virometer using confocal fluorescence microscopy to rapidly and specifically detect single nanoparticles and viruses in microfluidic laminar flow.

Single-molecule detection and super-resolution imaging with a portable and adaptable 3D-printed microscopy platform (Brick-MIC)

The paper introduces Brick-MIC, an affordable, open-source 3D-printed microscopy platform that enables single-molecule and super-resolution imaging techniques.

Dissecting Mechanisms of Ligand Binding and Conformational Changes in the Glutamine-Binding Protein

This study investigates the ligand binding mechanism of GlnBP in E. coli, finding that conformational changes and ligand binding are correlated, and that the induced-fit mechanism is more consistent with the data than conformational selection.

Labelizer: systematic selection of protein residues for covalent fluorophore labeling

Labelizer systematically selects protein residues for covalent fluorophore labeling using a naive Bayes classifier and provides a tool and webserver for this purpose.

EGFR+ lung adenocarcinomas coopt alveolar macrophage metabolism and function to support EGFR signaling and growth

This study shows EGFR-mutant lung adenocarcinomas exploit alveolar macrophage metabolism via GM-CSF--PPARγ signaling to support tumor growth and EGFR signaling, suggesting new therapeutic strategies combining statins and PPARγ inhibition.

Non-targeted metabolomics identifies erythronate accumulation in cancer cells

The paper identifies erythronate accumulation in cancer cells using non-targeted metabolomics and suggests it may serve as a cancer biomarker.

Inter-organelle crosstalk supports acetyl-coenzyme A homeostasis and lipogenesis under metabolic stress

The paper investigates how acetyl-CoA homeostasis and lipogenesis are maintained under metabolic stress through inter-organelle crosstalk using isotope tracing in knockout cell lines.

Reliability and accuracy of single-molecule FRET studies for characterization of structural dynamics and distances in proteins

This study evaluates the reliability and accuracy of single-molecule FRET for measuring protein structural dynamics and distances, finding high precision and accuracy with specific uncertainty limits.

1-deoxysphingolipid biosynthesis compromises anchorage-independent growth and plasma membrane endocytosis in cancer cells

This study shows that 1-deoxysphingolipid synthesis, driven by SPT promiscuity, impairs anchorage-independent growth and plasma membrane endocytosis in cancer cells.

Inferring kinetic rate constants from single-molecule FRET trajectories - a blind benchmark of kinetic analysis tools

This study benchmarks eleven tools for inferring kinetic rate constants from smFRET trajectories using simulated and experimental data with varying challenges.

High-throughput super-resolution analysis of influenza virus pleomorphism reveals insights into viral spatial organization

This study uses super-resolution microscopy to analyze influenza virus pleomorphism, revealing stochastic assembly and RNP localization in long filaments.

NaCT (SLC13A5) facilitates citrate import and metabolism under nutrient-limited conditions

This study shows that NaCT-mediated citrate uptake supports cell survival under nutrient limitation and metal toxicity by enhancing metabolism and lipogenesis.

Multi-parameter photon-by-photon hidden Markov modeling

This paper introduces multi-parameter H2MM to distinguish FRET dynamics from photophysical transitions in smFRET data, improving the analysis of biomolecular conformational changes.

Structural and biophysical characterization of the tandem substrate-binding domains of the ABC importer GlnPQ

This paper characterizes the structural and biophysical properties of the tandem substrate-binding domains of the ABC importer GlnPQ using crystal structures, calorimetry, and smFRET.

Triggering closure of a sialic acid TRAP transporter substrate binding protein through binding of natural or artificial substrates

This study investigates the conformational changes in the sialic acid TRAP transporter SBP VcSiaP upon substrate binding, showing that substrate induces closure and provides structural insights for inhibitor development.

Cross-validation of distance measurements in proteins by PELDOR/DEER and single-molecule FRET

This study compares PELDOR/DEER and smFRET for measuring distances in proteins, identifying discrepancies caused by cryoprotectants and label-protein interactions.

Molecular and spectroscopic characterization of green and red cyanine fluorophores from the Alexa Fluor and AF series

The paper characterizes the molecular structures and spectroscopic properties of Alexa Fluor and AF series dyes using spectroscopy, mass spectrometry, and molecular dynamics simulations.

Evolution of structural dynamics in bilobed proteins

The paper investigates how structural dynamics in bilobed proteins evolve, showing that modifications to the structural core enable functional diversification through altered interdomain interactions and substrate specificity.

Single-molecule studies of conformational states and dynamics in the ABC importer OpuA

This study uses smFRET to analyze conformational dynamics of OpuA, an ABC importer, revealing ligand-binding mechanisms and ATP/glycine betaine dependencies.

Intercalative DNA binding governs fluorescence enhancement of SYBR Gold

This study quantifies SYBR Gold binding to DNA using mechanical and spectroscopic methods, revealing intercalative binding and providing guidelines for quantitative DNA sensing.

Characterization of fluorescent proteins with intramolecular photostabilization

This study screens covalently-linked photostabilizers on fluorescent proteins, finding that azobenzene derivatives significantly enhance photostability compared to other stabilizers.

Single-molecule observation of ligand binding and conformational changes in FeuA

This study uses single-molecule techniques to observe ligand binding and conformational changes in FeuA, revealing an induced-fit mechanism and ligand-accelerated conformational shifts.

Conformational and dynamical plasticity in substrate-binding proteins underlies selective transport in ABC importers

This study investigates how substrate-binding proteins (SBPs) in ABC importers change conformation and dynamics in response to different ligands, revealing that transport specificity arises from conformational plasticity rather than a unique closed conformation.

Self-healing dyes for super-resolution microscopy

This study evaluates self-healing organic fluorophores for improved performance in STED and STORM super-resolution microscopy techniques.

On the impact of competing intra- and intermolecular triplet-state quenching on photobleaching and photoswitching kinetics of organic fluorophores

This study examines how intra- and intermolecular triplet-state quenching affects photobleaching and photoswitching in fluorophores, showing competition between these processes and identifying new roles for intramolecular quenchers.