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

VSEPR Theory and the Basic Shapes02:52

VSEPR Theory and the Basic Shapes

85.3K
Overview of VSEPR Theory
85.3K
Molecular Shapes01:18

Molecular Shapes

62.3K
Molecules have characteristic shapes that are crucial for their function. The arrangement of various electron groups around the central atom dictates their molecular geometry. Electron pairs in the valence shell of a central atom will adopt an arrangement that minimizes repulsions between the electron pairs by maximizing the distance between them. The valence electrons form either bonding pairs, located primarily between bonded atoms, or lone pairs.
Two regions of electron density in a diatomic...
62.3K
Molecular Shape and Polarity03:37

Molecular Shape and Polarity

75.9K
Dipole Moment of a Molecule
75.9K
Contact Angle01:13

Contact Angle

21.8K
When a solid is dipped inside a liquid, the liquid surface becomes curved near the contact. For some solid–liquid interfaces, the liquid is pulled up along the solid, while for others, the liquid surface is convex or depressed near the solid surface. This phenomenon can be explained using the concept of cohesive and adhesive forces.
The adhesive force is the molecular force between molecules of different materials, that is, between the molecules of the solid and the liquid. The cohesive...
21.8K
Scatter Plot01:15

Scatter Plot

11.9K
The most common and easiest way to display the relationship between two variables, x and y, is a scatter plot. A scatter plot shows the direction of a relationship between the variables. A clear direction happens when there is either:
11.9K
Open Angle Glaucoma: Treatment01:27

Open Angle Glaucoma: Treatment

1.0K
In open-angle glaucoma, the iridocorneal angle remains open, but the trabecular meshwork becomes stiff, slowing down the outflow of aqueous humor. This causes a buildup of aqueous humor in the anterior chamber, leading to a sudden increase in intraocular pressure. The treatment for open-angle glaucoma focuses on reducing the elevated intraocular pressure by either decreasing the secretion of aqueous humor or increasing its outflow.
Drugs such as carbonic anhydrase inhibitors, α2- and...
1.0K

You might also read

Related Articles

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

Sort by
Same author

Studies of the structural properties and stability of the molybdenum transport protein ModA from Oleidesulfovibrio alaskensis G20 upon metal binding.

Archives of biochemistry and biophysics·2025
Same author

Multi-Stimulus Soft Actuators from Aerosol Jet Printed MXene-Cellulose Composite.

Nano letters·2025
Same author

Compact polyethylenimine-complexed mRNA vaccines.

Nature nanotechnology·2025
Same author

AF4-to-SAXS: expanded characterization of nanoparticles and proteins at the P12 BioSAXS beamline.

Journal of synchrotron radiation·2025
Same author

A genetically encoded anomalous SAXS ruler to probe the dimensions of intrinsically disordered proteins.

Proceedings of the National Academy of Sciences of the United States of America·2024
Same author

Small-angle x-ray scattering investigation of the integration of free fatty acids in polysorbate 20 micelles.

Biophysical journal·2024

Related Experiment Video

Updated: Feb 7, 2026

Computation of Atmospheric Concentrations of Molecular Clusters from ab initio Thermochemistry
12:11

Computation of Atmospheric Concentrations of Molecular Clusters from ab initio Thermochemistry

Published on: April 8, 2020

8.7K

DAMMIF, a program for rapid ab-initio shape determination in small-angle scattering.

Daniel Franke1, Dmitri I Svergun2

  • 1European Molecular Biology Laboratory, Hamburg Outstation Notkestrasse 85, 22603 Hamburg, Germany.

Journal of Applied Crystallography
|September 16, 2016
PubMed
Summary

A new program, DAMMIF, offers faster ab initio shape determination for small-angle scattering data. It improves upon DAMMIN by optimizing algorithms and enabling multi-CPU use for quicker results.

Keywords:
DAMMIFDAMMINcomputer programsparticle shape determinationsmall-angle scattering

More Related Videos

Structural Studies of Macromolecules in Solution using Small Angle X-Ray Scattering
07:19

Structural Studies of Macromolecules in Solution using Small Angle X-Ray Scattering

Published on: November 5, 2018

13.4K
Contrast-Matching Detergent in Small-Angle Neutron Scattering Experiments for Membrane Protein Structural Analysis and Ab Initio Modeling
10:27

Contrast-Matching Detergent in Small-Angle Neutron Scattering Experiments for Membrane Protein Structural Analysis and Ab Initio Modeling

Published on: October 21, 2018

13.0K

Related Experiment Videos

Last Updated: Feb 7, 2026

Computation of Atmospheric Concentrations of Molecular Clusters from ab initio Thermochemistry
12:11

Computation of Atmospheric Concentrations of Molecular Clusters from ab initio Thermochemistry

Published on: April 8, 2020

8.7K
Structural Studies of Macromolecules in Solution using Small Angle X-Ray Scattering
07:19

Structural Studies of Macromolecules in Solution using Small Angle X-Ray Scattering

Published on: November 5, 2018

13.4K
Contrast-Matching Detergent in Small-Angle Neutron Scattering Experiments for Membrane Protein Structural Analysis and Ab Initio Modeling
10:27

Contrast-Matching Detergent in Small-Angle Neutron Scattering Experiments for Membrane Protein Structural Analysis and Ab Initio Modeling

Published on: October 21, 2018

13.0K

Area of Science:

  • Structural biology
  • Biophysics
  • Computational biology

Background:

  • Small-angle scattering (SAS) is crucial for determining the low-resolution shapes of biological macromolecules.
  • Existing ab initio shape determination programs like DAMMIN have limitations in speed and search volume.

Purpose of the Study:

  • To present DAMMIF, a significantly revised and optimized version of the DAMMIN program.
  • To enhance the speed and efficiency of ab initio shape determination for SAS data.

Main Methods:

  • DAMMIF is a complete rewrite of DAMMIN, featuring an optimized algorithm for faster execution.
  • The program addresses limitations of finite search volumes and allows for symmetry and anisometry constraints.
  • DAMMIF supports multi-CPU utilization for parallel processing.

Main Results:

  • DAMMIF demonstrates a 25-40 times speed increase over DAMMIN under equivalent conditions on a single CPU.
  • The enhanced algorithm and multi-CPU support significantly reduce computation time for shape determination.
  • The software is readily available in binary form for major operating systems.

Conclusions:

  • DAMMIF provides a substantial performance improvement for ab initio shape determination from SAS data.
  • The optimized program facilitates more efficient structural analysis of biological molecules.
  • Its availability and speed make it a valuable tool for researchers in structural biology and related fields.