ReviewCurrent opinion in structural biology2013
Modeling protein association mechanisms and kinetics.
Review in Current opinion in structural biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 55 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
55 citing papers in PubMed.
- Quantitative Modeling of TLR Signaling Reveals Missing Negative Feedback Guiding Identification of TANK-IKKε Checkpoint.bioRxiv : the preprint server for biology · 2026Article
- Unlocking hidden biomolecular conformational landscapes in diffusion models at inference time.ArXiv · 2026Article
- FINCHES: A Computational Framework for Predicting Intermolecular Interactions in Intrinsically Disordered Proteins.International journal of molecular sciences · 2025Review
- Unlocking hidden biomolecular conformational landscapes in diffusion models at inference time.Advances in neural information processing systems · 2025Article
- Quantifying Plant Signaling Pathways by Integrating Luminescence-Based Biosensors and Mathematical Modeling.Biosensors · 2024Article
- Competition between physical search and a weak-to-strong transition rate-limits kinesin binding times.PLoS computational biology · 2024Article
- Computational simulations of bispecific T cell engagers by a multiscale model.Biophysical journal · 2024Article
- In silico evolution of autoinhibitory domains for a PD-L1 antagonist using deep learning models.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Tozorakimab (MEDI3506): an anti-IL-33 antibody that inhibits IL-33 signalling via ST2 and RAGE/EGFR to reduce inflammation and epithelial dysfunction.Scientific reports · 2023Article
- Article
- Dissecting the general mechanisms of protein cage self-assembly by coarse-grained simulations.Protein science : a publication of the Protein Society · 2023Article
- Understanding the functional role of membrane confinements in TNF-mediated signaling by multiscale simulations.Communications biology · 2022Article
- A non-catalytic herpesviral protein reconfigures ERK-RSK signaling by targeting kinase docking systems in the host.Nature communications · 2022Article
- Multivalency enables unidirectional switch-like competition between intrinsically disordered proteins.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Computational Assessment of Protein-protein Binding Affinity by Reversely Engineering the Energetics in Protein Complexes.Genomics, proteomics & bioinformatics · 2021Article
- Classification of protein-protein association rates based on biophysical informatics.BMC bioinformatics · 2021Article
- A computational study of co-inhibitory immune complex assembly at the interface between T cells and antigen presenting cells.PLoS computational biology · 2021Article
- Understanding the impacts of cellular environments on ligand binding of membrane receptors by computational simulations.The Journal of chemical physics · 2021Article
- Understand the Functions of Scaffold Proteins in Cell Signaling by a Mesoscopic Simulation Method.Biophysical journal · 2020Article
- The tail of cryptochromes: an intrinsically disordered cog within the mammalian circadian clock.Cell communication and signaling : CCS · 2020Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
Substantial advances have been made in modeling protein association mechanisms and in calculating association rate constants (ka). We now have a clear understanding of the physical factors underlying the wide range of experimental ka values. Half of the association problem, where ka is limited by diffusion, is perhaps solved, and for the other half, where conformational changes become rate-limiting, a number of promising methods are being developed for ka calculations. Notably, the binding kinetics of disordered proteins are receiving growing attention, with 'dock-and-coalesce' emerging as a general mechanism. Progress too has been made in the modeling of protein association kinetics under conditions mimicking the heterogeneous, crowded environments of cells, an endeavor that should ultimately lead to a better understanding of cellular functions.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.