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Related Concept Videos

Molecular Models02:00

Molecular Models

Physical models representing molecular architectures of chemical compounds play essential roles in understanding chemistry. The use of molecular models makes it easier to visualize the structures and shapes of atoms and molecules.
Newman Projections02:06

Newman Projections

Different notations are used to represent the three-dimensional structure of molecules on two-dimensional surfaces. One of the most commonly used representations is the dash-wedge formula. The dashed wedges, solid wedges, and the plane lines indicate the groups situated behind the plane, coming out of the plane, and in the plane, respectively.
The organic molecules rotate across the single bonds leading to numerous temporary three-dimensional structures of varying energy known as conformers.
Structural Isomerism02:34

Structural Isomerism

Isomerism in Complexes
Isomers are different chemical species that have the same chemical formula. Structural isomerism of coordination compounds can be divided into two subcategories, the linkage isomers and coordination-sphere isomers.
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Structural Protein Function

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Structures of Solids02:22

Structures of Solids

Solids in which the atoms, ions, or molecules are arranged in a definite repeating pattern are known as crystalline solids. Metals and ionic compounds typically form ordered, crystalline solids. A crystalline solid has a precise melting temperature because each atom or molecule of the same type is held in place with the same forces or energy. Amorphous solids or non-crystalline solids (or, sometimes, glasses) which lack an ordered internal structure and are randomly arranged. Substances that...

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Structural Studies of Macromolecules in Solution using Small Angle X-Ray Scattering
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Representing structural information with RasMol.

David S Goodsell1

  • 1The Scripps Research Institute, La Jolla, California, USA.

Current Protocols in Bioinformatics
|April 23, 2008
PubMed
Summary
This summary is machine-generated.

Learn to visualize biomolecular structures using RasMol, a molecular graphics program. This guide covers obtaining protein data, displaying molecules, and customizing your visualization sessions for better understanding.

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Area of Science:

  • Structural Biology
  • Computational Biology
  • Biochemistry

Background:

  • Understanding biomolecular structures is crucial in various life science disciplines.
  • Interactive molecular graphics programs facilitate the visualization and analysis of complex 3D biomolecular data.
  • RasMol is a widely adopted tool for displaying and manipulating molecular structures.

Purpose of the Study:

  • To provide a comprehensive guide on utilizing RasMol for displaying biomolecular structures.
  • To educate users on obtaining and visualizing molecular coordinates from the Protein Data Bank.
  • To demonstrate various molecular representations and customization techniques for enhanced structural analysis.

Main Methods:

  • Downloading molecular coordinate files from the Protein Data Bank.
  • Utilizing RasMol for interactive display of biomolecular structures.
  • Exploring different molecular representations (e.g., wireframe, sphere, ribbon).
  • Implementing methods to verify the correct biological unit.
  • Customizing visualization settings for specific research needs.

Main Results:

  • Users can effectively obtain and visualize biomolecular structures using RasMol.
  • A variety of molecular representations can be employed to highlight different structural features.
  • Methods are available to ensure the accurate representation of biological assemblies.
  • RasMol allows for personalized molecular graphics sessions tailored to user requirements.

Conclusions:

  • RasMol is a versatile tool for the visualization and exploration of biomolecular structures.
  • Effective use of RasMol enhances the understanding of molecular function and interactions.
  • This guide empowers researchers to leverage RasMol for their structural biology studies.