ReviewAnnual review of biochemistry2011
Enzymatic transition states, transition-state analogs, dynamics, thermodynamics, and lifetimes.
Review in Annual review of biochemistry, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 99 papers.
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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.
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Who cites it
99 citing papers in PubMed.
- Direct Competitive Kinetic Isotope Effect Measurement Using Quantitative Whole Molecule Matrix-Assisted Laser Desorption Ionization Time-of-Flight Mass Spectrometry.Chembiochem : a European journal of chemical biology · 2026Article
- FUT8 Catalysis Involves GDP-Fucose-Induced Loop Activation Promoting a Reaction at the SACS catalysis · 2026Article
- GoFlow: efficient transition state geometry prediction with flow matching and E(3)-equivariant neural networks.Digital discovery · 2025Article
- Unlocking the chemistry facilitated by enzymes that process nucleic acids using quantum mechanical and combined quantum mechanics-molecular mechanics techniques.Pure and applied chemistry. Chimie pure et appliquee · 2025Review
- Protein Catalysis Through Structural Dynamics: A Comprehensive Analysis of Energy Conversion in Enzymatic Systems and Its Computational Limitations.Pharmaceuticals (Basel, Switzerland) · 2025Review
- The anti-cancer transition-state inhibitor MTDIA inhibits human MTAP, inducing autophagy in humanized yeast.Disease models & mechanisms · 2025Article
- Conformational dynamics and molecular interactions of natural products: unveiling functional structures in biological membranes.Proceedings of the Japan Academy. Series B, Physical and biological sciences · 2025Review
- Transition State Analysis of SAMHD1 from PrimaryJournal of the American Chemical Society · 2025Article
- Chemical Tools for Probing the Ub/Ubl Conjugation Cascades.Chembiochem : a European journal of chemical biology · 2025Review
- Dynamic energy conversion in protein catalysis: From brownian motion to enzymatic function.Computational and structural biotechnology journal · 2025Review
- Scanning Probe Nano-Infrared Imaging and Spectroscopy of Biochemical and Natural Materials.Small science · 2024Article
- Exploring Bacillus species xylanases for industrial applications: screening via thermostability and reaction modelling.Journal of molecular modeling · 2024Article
- Perspectives on Computational Enzyme Modeling: From Mechanisms to Design and Drug Development.ACS omega · 2024Review
- Kinetics and Mechanism of Azole n-π*-Catalyzed Amine Acylation.Journal of the American Chemical Society · 2023Article
- Decoupling of catalysis and transition state analog binding from mutations throughout a phosphatase revealed by high-throughput enzymology.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Energetics of the Glycosyl Transfer Reactions of Sucrose Phosphorylase.Biochemistry · 2023Article
- Capturing the free energy of transition state stabilization: insights from the inhibition of mandelate racemase.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2023Review
- Structural snapshots of base excision by the cancer-associated variant MutY N146S reveal a retaining mechanism.Nucleic acids research · 2023Article
- Protein dynamics: The future is bright and complicated!Structural dynamics (Melville, N.Y.) · 2023Article
- Transition Path Sampling Based Calculations of Free Energies for Enzymatic Reactions: The Case of Human Methionine Adenosyl Transferase andThe journal of physical chemistry. B · 2022Article
39 more citing papers are in PubMed but not listed here.
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Funding
Abstract
Experimental analysis of enzymatic transition-state structures uses kinetic isotope effects (KIEs) to report on bonding and geometry differences between reactants and the transition state. Computational correlation of experimental values with chemical models permits three-dimensional geometric and electrostatic assignment of transition states formed at enzymatic catalytic sites. The combination of experimental and computational access to transition-state information permits (a) the design of transition-state analogs as powerful enzymatic inhibitors, (b) exploration of protein features linked to transition-state structure, (c) analysis of ensemble atomic motions involved in achieving the transition state, (d) transition-state lifetimes, and (e) separation of ground-state (Michaelis complexes) from transition-state effects. Transition-state analogs with picomolar dissociation constants have been achieved for several enzymatic targets. Transition states of closely related isozymes indicate that the protein's dynamic architecture is linked to transition-state structure. Fast dynamic motions in catalytic sites are linked to transition-state generation. Enzymatic transition states have lifetimes of femtoseconds, the lifetime of bond vibrations. Binding isotope effects (BIEs) reveal relative reactant and transition-state analog binding distortion for comparison with actual transition states.
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