Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Microbes and Methanogenesis01:26

Microbes and Methanogenesis

30
Methanogenesis is a critical microbial process in anaerobic ecosystems responsible for the biological production of methane, a potent greenhouse gas and valuable biofuel. This metabolic pathway is primarily facilitated by methanogenic archaea, which thrive in anoxic environments such as wetlands, sediments, and animal gastrointestinal tracts. The absence of oxygen in these habitats prevents aerobic respiration, thereby favoring alternative biochemical pathways for organic matter degradation.In...
30
Combustion Energy: A Measure of Stability in Alkanes and Cycloalkanes02:14

Combustion Energy: A Measure of Stability in Alkanes and Cycloalkanes

8.3K
The low reactivity in alkanes can be attributed to the non-polar nature of C–C and C–H σ bonds. Alkanes, therefore, were  initially termed as “paraffins,” derived from the Latin words: parum, meaning “too little,” and affinis, meaning “affinity.”
Alkanes undergo combustion in the presence of excess oxygen and high-temperature conditions to give carbon dioxide and water. A combustion reaction is the energy source in natural gas, liquified...
8.3K
Mass Spectrometry: Branched Alkane Fragmentation01:29

Mass Spectrometry: Branched Alkane Fragmentation

1.9K
This lesson delves into the mass spectrometry of branched alkane fragmentation. Branched alkanes possess secondary or tertiary carbon atoms, which generate relatively stable carbocations if the cleavage occurs at the branching point. The high stability of carbocations drives the instant fragmentation of branched alkanes. Accordingly, the branched alkane's molecular ion peak is very weak or invisible in the mass spectra, especially in comparison to a linear alkane.
1.9K
Microbial Interactions: Mutualism01:25

Microbial Interactions: Mutualism

37
Mutualism is a symbiotic interaction in which all participating organisms benefit. These relationships can be obligate or facultative and are fundamental to ecosystem functions across diverse biological systems.Plant–Fungi MutualismOne well-known example is the association between plant roots and mycorrhizal fungi, such as Rhizophagus species. The fungal hyphae penetrate the root hairs and the epidermis, forming an extensive hyphal network that establishes a symbiotic association. Through...
37
Mass Spectrometry: Cycloalkane Fragmentation01:05

Mass Spectrometry: Cycloalkane Fragmentation

2.5K
In mass spectrometry, cycloalkanes exhibit distinct fragmentation patterns due to the inherent stability of their molecular ions compared to linear or branched alkanes. The ring structure of cycloalkanes provides additional stability to the molecular ions, often resulting in prominent ion peaks in the mass spectrum.
For example, cyclohexane molecular ions have a mass-to-charge ratio (m/z) of 84, which tends to produce a stronger signal than linear alkanes like hexane. This stability comes from...
2.5K
Inductive Effects on Chemical Shift: Overview01:27

Inductive Effects on Chemical Shift: Overview

2.5K
The protons in unsubstituted alkanes are strongly shielded with chemical shifts below 1.8 ppm. Methine, methylene, and methyl protons appear at approximately 1.7, 1.2 and 0.7 ppm, while the proton signal from methane appears at 0.23 ppm. An electronegative substituent, such as chlorine, withdraws the electron density from the protons, increasing their chemical shift. Progressive substitution of the hydrogens in methane by chlorine shifts the proton signals increasingly downfield, to 3.05 ppm in...
2.5K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Third-order exchange-induction-dispersion energy in symmetry-adapted perturbation theory without single-exchange approximation.

The Journal of chemical physics·2026
Same author

The Open Molecular Software Foundation (OMSF) and the Growing Role of Open Source Software in Molecular Modeling.

Journal of chemical information and modeling·2026
Same author

Understanding nonbonded interactions between molecular fragments.

Chemical communications (Cambridge, England)·2025
Same author

Rovibrational dynamics of the quasistructural N<sub>2</sub> dimer.

Communications chemistry·2025
Same author

Influence of three-body effects on halogen bonding.

Physical chemistry chemical physics : PCCP·2025
Same author

Analytical Derivatives of Symmetry-Adapted Perturbation Theory Corrections for Interaction-Induced Properties.

Journal of chemical theory and computation·2025
Same journal

Complementing Onsager's Conductivity Theory by Grotthuss Mechanism Mitigation via Ion-Induced Depletion of Hydrogen-Bond-Donating Water.

Journal of chemical theory and computation·2026
Same journal

Microscopic Stress in Biomembranes: A Perspective on Key Concepts, Methods, and Applications.

Journal of chemical theory and computation·2026
Same journal

Analytic Nuclear Gradients Including Oriented External Electric Fields in a Molecule-Fixed Frame.

Journal of chemical theory and computation·2026
Same journal

Knowledge Distillation of a Protein Language Model Yields a Foundational Implicit Solvent Model.

Journal of chemical theory and computation·2026
Same journal

Generalizable Protein Folding Pathway Exploration with DA2-GRASP: Extending Beyond Miniproteins.

Journal of chemical theory and computation·2026
Same journal

Improving PCM in Protic Media: Markov State Models for TD-DFT Calculations.

Journal of chemical theory and computation·2026
See all related articles

Related Experiment Video

Updated: Mar 29, 2026

Experimental Study of the Relationship Between Particle Size and Methane Sorption Capacity in Shale
07:23

Experimental Study of the Relationship Between Particle Size and Methane Sorption Capacity in Shale

Published on: August 2, 2018

8.1K

Interactions between Methane and Polycyclic Aromatic Hydrocarbons: A High Accuracy Benchmark Study.

Daniel G A Smith1, Konrad Patkowski1

  • 1Department of Chemistry and Biochemistry, Auburn University, Auburn, Alabama 36849, United States.

Journal of Chemical Theory and Computation
|November 22, 2015
PubMed
Summary
This summary is machine-generated.

For larger polycyclic aromatic hydrocarbons (PAHs), methane prefers triply coordinated structures over singly coordinated ones. This finding is crucial for understanding hydrocarbon adsorption on carbon nanostructures.

More Related Videos

On-line Analysis of Nitrogen Containing Compounds in Complex Hydrocarbon Matrixes
07:49

On-line Analysis of Nitrogen Containing Compounds in Complex Hydrocarbon Matrixes

Published on: August 5, 2016

11.2K
Combustion Chemistry of Fuels: Quantitative Speciation Data Obtained from an Atmospheric High-temperature Flow Reactor with Coupled Molecular-beam Mass Spectrometer
07:24

Combustion Chemistry of Fuels: Quantitative Speciation Data Obtained from an Atmospheric High-temperature Flow Reactor with Coupled Molecular-beam Mass Spectrometer

Published on: February 19, 2018

10.6K

Related Experiment Videos

Last Updated: Mar 29, 2026

Experimental Study of the Relationship Between Particle Size and Methane Sorption Capacity in Shale
07:23

Experimental Study of the Relationship Between Particle Size and Methane Sorption Capacity in Shale

Published on: August 2, 2018

8.1K
On-line Analysis of Nitrogen Containing Compounds in Complex Hydrocarbon Matrixes
07:49

On-line Analysis of Nitrogen Containing Compounds in Complex Hydrocarbon Matrixes

Published on: August 5, 2016

11.2K
Combustion Chemistry of Fuels: Quantitative Speciation Data Obtained from an Atmospheric High-temperature Flow Reactor with Coupled Molecular-beam Mass Spectrometer
07:24

Combustion Chemistry of Fuels: Quantitative Speciation Data Obtained from an Atmospheric High-temperature Flow Reactor with Coupled Molecular-beam Mass Spectrometer

Published on: February 19, 2018

10.6K

Area of Science:

  • Computational chemistry
  • Materials science
  • Physical chemistry

Background:

  • Polycyclic aromatic hydrocarbons (PAHs) are fundamental components in various chemical and physical processes.
  • Understanding the interaction between PAHs and small molecules like methane is key to fields such as materials science and astrochemistry.
  • Previous studies indicated singly coordinated structures as energetically favorable for benzene-methane interactions.

Purpose of the Study:

  • To determine the minimum energy structures and interaction energies of methane with a series of PAHs.
  • To investigate the shift in preferred coordination geometries for larger PAHs compared to smaller ones.
  • To benchmark various density functional theory (DFT) methods against high-level wave-function theory calculations for PAH-methane interactions.

Main Methods:

  • High-level electronic structure calculations, including complete-basis-set extrapolated MP2 and CCSD(T) methods.
  • Density functional theory (DFT) with dispersion corrections (e.g., -D3) was evaluated.
  • Symmetry-adapted perturbation theory (SAPT) was used to analyze interaction components.

Main Results:

  • The global minimum energy configuration for methane interacting with naphthalene and larger PAHs shifts from singly to triply coordinated structures.
  • Triply coordinated geometries are predicted to be the global minimum for methane on extended systems like graphene and carbon nanotubes.
  • The B3LYP functional with the -D3 dispersion correction accurately predicted interaction energies, serving as a benchmark for approximate methods.

Conclusions:

  • The coordination preference of methane on PAHs is size-dependent, favoring triply coordinated structures for larger systems.
  • This study provides critical data for developing accurate computational methods to model hydrocarbon physisorption on carbon nanostructures.
  • The findings have implications for understanding methane adsorption on graphite and related materials.