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Molecular Dynamics Simulations of Biological Reactions

https://doi.org/10.1021/ar010033z
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34/34 checkable references clean · checked 2026-09-06

Every reference with a DOI in the deposited reference list resolved to a known work in Crossref or DataCite at the dated check, and none carried a retraction, withdrawal, or removal notice.

16 without a DOI — not checked. A reference deposited without a DOI is never matched by title or guessed at; it stays outside the checked set, and this line discloses that.

The 34 checked references that resolve
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Consistent Force Field for Calculations of Conformations, Vibrational Spectra, and Enthalpies of Cycloalkane and <i>n</i> -Alkane Molecules
resolves10.1038/260679a0
Bicycle-pedal model for the first step in the vision process
resolves10.1038/267585a0
Dynamics of folded proteins
resolves10.1017/S0033583501003730
Dynamics of biochemical and biophysical reactions: insight from computer simulations
resolves10.1146/annurev.pc.41.100190.003343
Photophysics and Molecular Electronic Applications of the Rhodopsins
resolves10.1021/ja00514a052
Catalysis of hydrogen production in irradiated aqueous solutions by gold sols
resolves10.1021/jp010704a
Nature of the Surface Crossing Process in Bacteriorhodopsin:  Computer Simulations of the Quantum Dynamics of the Primary Photochemical Event
resolves10.1021/ja00370a003
Energy storage and reaction pathways in the first step of the vision process
resolves10.1073/pnas.69.10.2802
Formation and Decay of Prelumirhodopsin at Room Temperatures
resolves10.1126/science.3363359
Direct Observation of the Femtosecond Excited-State <i>cis</i> - <i>trans</i> Isomerization in Bacteriorhodopsin
resolves10.1016/S0022-2836(05)80271-2
Model for the structure of bacteriorhodopsin based on high-resolution electron cryo-microscopy
resolves10.1016/0301-0104(91)87074-6
The dynamics of the primary event in rhodopsins revisited
resolves10.1039/a801310a
Quantum dynamics of the femtosecond photoisomerization of retinal in bacteriorhodopsin
resolves10.1021/j100209a016
Dynamics of reactions in polar solvents. Semiclassical trajectory studies of electron-transfer and proton-transfer reactions
resolves10.1021/bi00402a044
Nucleotide binding to uncoupling protein. Mechanism of control by protonation
resolves10.1146/annurev.pc.42.100191.001431
Computer Simulations of Electron-Transfer Reactions in Solution and in Photosynthetic Reaction Centers
resolves10.1006/jmbi.1994.0097
Crystallographic refinement at 2.3 Å Resolution and Refined Model of the Photosynthetic Reaction Centre fromRhodopseudomonas viridis
resolves10.1021/ja00154a031
Calculations of Electrostatic Energies in Photosynthetic Reaction Centers
resolves10.1021/bi9607012
Energetics and Kinetics of Radical Pairs in Reaction Centers from <i>Rhodobacter sphaeroides</i>. A Femtosecond Transient Absorption Study<sup>,</sup>
resolves10.1007/978-1-4899-0815-5_37
Electrostatic Control of Electron Transfer in the Photosynthetic Reaction Center of Rhodopseudomonas viridis
resolves10.1021/ja00063a041
Diabatic surfaces and the pathway for primary electron transfer in a photosynthetic reaction center
resolves10.1063/1.449981
Simulation of the dynamics of electron transfer reactions in polar solvents: Semiclassical trajectories and dispersed polaron approaches
resolves10.1126/science.2675313
Dispersed Polaron Simulations of Electron Transfer in Photosynthetic Reaction Centers
resolves10.1143/PTP.13.160
Application of the Method of Generating Function to Radiative and Non-Radiative Transitions of a Trapped Electron in a Crystal
resolves10.1021/jp011048h
Energetics and Dynamics of Enzymatic Reactions
resolves10.1021/ar00069a004
Electrostatic basis of structure-function correlation in proteins
resolves10.1016/S0009-2614(97)00068-7
Molecular dynamics of an enzyme reaction: proton transfer in TIM
resolves10.1016/S0006-3495(89)82662-1
Energetics of ion permeation through membrane channels. Solvation of Na+ by gramicidin A
resolves10.1126/science.280.5360.69
The Structure of the Potassium Channel: Molecular Basis of K <sup>+</sup> Conduction and Selectivity
resolves10.1038/35009114
Ion permeation mechanism of the potassium channel
resolves10.1016/S0006-3495(01)76097-3
Side-Chain Ionization States in a Potassium Channel
resolves10.1017/S0033583500005333
Calculations of electrostatic interactions in biological systems and in solutions
resolves10.1021/bi00374a006
Free energy of charges in solvated proteins: microscopic calculations using a reversible charging process
resolves10.1021/cr00023a004
Free energy calculations: Applications to chemical and biochemical phenomena
The 16 references without a DOI — listed, not checked
no DOI — not checkedar010033zb00002/ar010033zb00002_1
no DOI — not checkedar010033zb00009/ar010033zb00009_1
no DOI — not checkedStructure and Motion:  Membranes, Nucleic Acids and Proteins
no DOI — not checkedar010033zb00021/ar010033zb00021_1
no DOI — not checkedar010033zb00022/ar010033zb00022_1
no DOI — not checkedComputer Modeling of Chemical Reactions in Enzymes and Solutions
no DOI — not checkedAlgorithms for Chemical Computations
no DOI — not checkedar010033zb00033/ar010033zb00033_1
no DOI — not checkedar010033zb00036/ar010033zb00036_1
no DOI — not checkedar010033zb00037/ar010033zb00037_1
no DOI — not checkedar010033zb00038/ar010033zb00038_1
no DOI — not checkedar010033zb00039/ar010033zb00039_1
no DOI — not checkedSimulating proton translocations in proteins:  Probing proton-transfer pathways in the Rhodobacter Sphaeroides Reaction Center
no DOI — not checkedar010033zb00042/ar010033zb00042_1
no DOI — not checkedar010033zb00043/ar010033zb00043_1
no DOI — not checkedar010033zb00049/ar010033zb00049_1
What this badge says. CiteStamped means the CHECKABLE references of this work were clean at the dated check: each resolved to a known work in a public registry, and none carried a retraction notice at that time. It says nothing about the quality, findings, or importance of the work itself, and nothing about references deposited without a DOI.

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