Publications

2026 Dynamic redistribution of eIF4F controls cap-dependent translation initiation Ruben L Gonzalez Jr · bioRxiv, 2026.06 · Scholar only — 2026 Elevator mechanism dynamics in a sodium-coupled dicarboxylate transporter Ruben L Gonzalez Jr · Proceedings of the National Academy of Sciences · Scholar only 13 2026 Toward a unifying mechanistic model of eukaryotic translation initiation through integrative single-molecule, structural, and computational insights Ruben L Gonzalez Jr · Current Opinion in Structural Biology · Scholar only 1 2025 A cascade of structural rearrangements positions peptide release factor 2 for polypeptide hydrolysis on the ribosome Ruben L Gonzalez Jr · Proceedings of the National Academy of Sciences · Scholar only 2 2025 RNA adapts its flexibility to efficiently fold and resist unfolding Ruben L Gonzalez Jr · Nucleic Acids Research 53 (14), gkaf681 · Scholar only 1 2025 The mechanism of mRNA cap recognition Ruben L Gonzalez Jr · Nature · Scholar only 45 2024 A dynamic compositional equilibrium governs mRNA recognition by eIF3 Ruben L Gonzalez Jr · bioRxiv · Scholar only 5 2024 Fluorescence resonance energy transfer at the single-molecule level Ruben L Gonzalez Jr · Nature Reviews Methods Primers · Scholar only 113 2023 Comparative genetic, biochemical, and biophysical analyses of the four E. coli ABCF paralogs support distinct functions related to mRNA translation Ruben L Gonzalez Jr · Biorxiv, 2023.06 · Scholar only 16 2023 Cryo-EM studies of the four E. coli paralogs establish ABCF proteins as master plumbers of the peptidyl-transferase center of the ribosome Ruben L Gonzalez Jr · bioRxiv, 2023.06 · Scholar only 19 2023 Ratchet, swivel, tilt and roll: a complete description of subunit rotation in the ribosome Ruben L Gonzalez Jr · Nucleic acids research · Scholar only 47 2023 Ribosomal protein engineering enables previously inaccessible single-molecule fluorescence studies of translation Ruben L Gonzalez Jr · PROTEIN SCIENCE · Scholar only — 2023 The mechanism of mRNA activation Ruben L Gonzalez Jr · bioRxiv · Scholar only 7 2022 Characterizing the conformational free-energy landscape of RNA stem-loops using single-molecule field-effect transistors Ruben L Gonzalez Jr · Journal of the American Chemical Society · Scholar only 10 2022 Inferring the shape of data: a probabilistic framework for analysing experiments in the natural sciences Ruben L Gonzalez Jr · Proceedings. Mathematical, Physical, and Engineering Sciences · Scholar only 6 2022 Mechanistic implications of the interaction of the soluble substrate-binding protein with a type II ABC importer Ruben L Gonzalez Jr · bioRxiv, 2022.12 · Scholar only 2 2022 NusG-mediated coupling of transcription and translation enhances gene expression by suppressing RNA polymerase backtracking Ruben L Gonzalez Jr · Journal of molecular biology · Scholar only 30 2022 Realtime observation of ATP-driven single B12 molecule translocation through BtuCD-F Ruben L Gonzalez Jr · bioRxiv, 2022.12 · Scholar only 3 2021 Bayesian inference: The comprehensive approach to analyzing single-molecule experiments Ruben L Gonzalez Jr · Annual Review of Biophysics · Scholar only 36 2021 Insights into genome recoding from the mechanism of a classic+ 1-frameshifting tRNA Ruben L Gonzalez Jr · Nature Communications · Scholar only 46 2021 Mechanistic studies of non-canonical amino acid mutagenesis Ruben L Gonzalez Jr · Methods in enzymology · Scholar only 4 2021 NusG links transcription and translation in Escherichia coli extracts Ruben L Gonzalez Jr · bioRxiv, 2021.07 · Scholar only 1 2020 Cap‐independent translation of a subset of cellular mRNAs is driven by the direct recruitment of eIF4G or DAP5 to the 5′ UTR of these mRNAs Ruben L Gonzalez Jr · The FASEB Journal · Scholar only — 2020 Multiplexed genomic encoding of non-canonical amino acids for labeling large complexes Ruben L Gonzalez Jr · Nature chemical biology · Scholar only 14 2020 RNA Polymerase and the Ribosome: In Touch or out of Touch? Ruben L Gonzalez Jr · Journal of Molecular Biology · Scholar only — 2020 The alarmones (p) ppGpp directly regulate translation initiation during entry into quiescence Ruben L Gonzalez Jr · Proceedings of the National Academy of Sciences · Scholar only 116 2019 Late steps in bacterial translation initiation visualized using time-resolved cryo-EM Ruben L Gonzalez Jr · Nature · Scholar only 190 2019 Multiplexed, bioorthogonal labeling of multicomponent, biomolecular complexes using genomically encoded, non-canonical amino acids Ruben L Gonzalez Jr · bioRxiv · Scholar only 1 2019 (p) ppGpp directly regulates translation initiation during entry into quiescence Ruben L Gonzalez Jr · bioRxiv · Scholar only 2 2018 5’UTR recruitment of eIF4GI or DAP5 drives cap-independent translation for a subset of human mRNAs Ruben L Gonzalez Jr · Scholar only — 2018 D-Amino Acid Mediated Translation Arrest Is Modulated by the Identity of the Incoming Aminoacyl-tRNA Ruben L Gonzalez Jr · Biochemistry · Scholar only 11 2018 Observation and analysis of RAD51 nucleation dynamics at single-monomer resolution Ruben L Gonzalez Jr · Methods in enzymology · Scholar only 28 2018 Real-time structural dynamics of late steps in bacterial translation initiation visualized using time-resolved cryogenic electron microscopy Ruben L Gonzalez Jr · bioRxiv · Scholar only 2 2018 Recruitment of human eIF4G1 or DAP5 to the 5’untranslated regions of a subset of cellular mRNAs drives cap-independent translation Ruben L Gonzalez Jr · bioRxiv · Scholar only 1 2017 Abstract A17: Probing a translational switch involved in tumor angiogenesis Ruben L Gonzalez Jr · Cancer Research · Scholar only — 2017 A conformational switch in initiation factor 2 controls the fidelity of translation initiation in bacteria Ruben L Gonzalez Jr · Nature Communications · Scholar only 37 2017 Survivor: Ribosome Edition Ruben L Gonzalez Jr · The EMBO Journal · Scholar only 1 2016 Precisely and accurately inferring single-molecule rate constants Ruben L Gonzalez Jr · Methods in enzymology · Scholar only 39 2016 Probing DNA Conformational Changes in Real Time Using Single-Molecule Electronic Sensors Based on Carbon Nanotube Field-Effect Transistors Ruben L Gonzalez Jr · Electrochemical Society Meeting Abstracts · Scholar only — 2016 Single-molecule reaction chemistry in patterned nanowells Ruben L Gonzalez Jr · Nano letters · Scholar only 72 2015 A dynamic RNA loop in an IRES affects multiple steps of elongation factor-mediated translation initiation Ruben L Gonzalez Jr · Elife · Scholar only 38 2015 Protein synthesis during cellular quiescence is inhibited by phosphorylation of a translational elongation factor Ruben L Gonzalez Jr · Proceedings of the National Academy of Sciences · Scholar only 83 2015 Quantitative connection between ensemble thermodynamics and single-molecule kinetics: a case study using cryogenic electron microscopy and single-molecule fluorescence … Ruben L Gonzalez Jr · The Journal of Physical Chemistry B · Scholar only 20 2015 Ribosomal initiation complex-driven changes in the stability and dynamics of initiation factor 2 regulate the fidelity of translation initiation Ruben L Gonzalez Jr · Journal of molecular biology · Scholar only 44 2015 Single-molecule dataset (SMD): a generalized storage format for raw and processed single-molecule data Ruben L Gonzalez Jr · BMC bioinformatics · Scholar only 11 2015 The emerging role of rectified thermal fluctuations in initiator aa-tRNA-and start codon selection during translation initiation Ruben L Gonzalez Jr · Biochimie · Scholar only 19 2015 The Ribosome Can Discriminate the Chirality of Amino Acids Within Its Peptidyl Transferase Center Ruben L Gonzalez Jr · Proceedings of the National Academy of Sciences · Scholar only 111 2015 Translation initiation factor 3 regulates switching between different modes of ribosomal subunit joining Ruben L Gonzalez Jr · Journal of molecular biology · Scholar only 53 2014 A frameshifting stimulatory stem loop destabilizes the hybrid state and impedes ribosomal translocation Ruben L Gonzalez Jr · Proceedings of the National Academy of Sciences · Scholar only 130 2014 Deoxypolypeptides bind and cleave RNA Ruben L Gonzalez Jr · Proceedings of the National Academy of Sciences · Scholar only 14