The CCP4 file format is file generated by the Collaborative Computational Project Number 4

Collaborative Computational Project Number 4

The Collaborative Computational Project Number 4 in protein crystallography or was set up in 1979 in the United Kingdom to support collaboration between researchers working in software development and assemble a comprehensive collection of software for structural biology...

 in 1979. The file format for electron density

Electron density

Electron density is the measure of the probability of an electron being present at a specific location.In molecules, regions of electron density are usually found around the atom, and its bonds...

 has become industry standard in X-ray crystallography

X-ray crystallography

X-ray crystallography is a method of determining the arrangement of atoms within a crystal, in which a beam of X-rays strikes a crystal and causes the beam of light to spread into many specific directions. From the angles and intensities of these diffracted beams, a crystallographer can produce a...

 and Cryo-electron microscopy

Cryo-electron microscopy

Cryo-electron microscopy , or electron cryomicroscopy, is a form of transmission electron microscopy where the sample is studied at cryogenic temperatures...

 where the result of the technique is a three-dimensional grid of voxel

Voxel

A voxel is a volume element, representing a value on a regular grid in three dimensional space. This is analogous to a pixel, which represents 2D image data in a bitmap...

s each with a value corresponding to density of electrons (see wave function) The CCP4 format is supported by almost every molecular graphics suite that supports volumetric data. The major packages include:

• Visual molecular dynamics
  Visual Molecular Dynamics
  - External links :* * *...
  
  
• PyMOL
  PyMOL
  PyMOL is an open-source, user-sponsored, molecular visualization system created by Warren Lyford DeLano and commercialized by DeLano Scientific LLC, which is a private software company dedicated to creating useful tools that become universally accessible to scientific and educational communities...
  
  
• UCSF Chimera
  UCSF Chimera
  UCSF Chimera is an extensible program for interactive visualization and analysis of molecular structures and related data, including density maps, supramolecular assemblies, sequence alignments, docking results, trajectories, and conformational ensembles. High-quality and can be created...
  
  
• Bsoft
  Bsoft
  Bsoft is a collection of programs and a platform for development of software for image and molecular processing in structural biology. Problems in structural biology are approached with a highly modular design, allowing fast development of new algorithms without the burden of issues such as file I/O...
  
  
• Coot
  Coot (program)
  The program Coot is used to display and manipulate atomic models of macromolecules, typically of proteins or nucleic acids, using 3D computer graphics...
  
  
• MOE
  Chemical Computing Group
  Chemical Computing Group is a software company specializing in research software for computational chemistry, bioinformatics, cheminformatics, docking, pharmacophore searching and molecular simulation. The company's main customer base consists of pharmaceutical and biotechnology companies, as well...
  
  

See also

• MTZ (file format)
• MRC (file format)
  MRC (file format)
  The MRC file format is a file format for electron density has become industry standard in Cryo-electron microscopy where the result of the technique is a three-dimensional grid of voxels each with a value corresponding to density of electrons The MRC format is supported by almost every molecular...
  
  
• EZD (file format)
• Chemical file format
  Chemical file format
  This article discusses some common molecular file formats, including usage and converting between them.-Distinguishing formats:Chemical information is usually provided as files or streams and many formats have been created, with varying degrees of documentation. The format can be found by three...
  
  
  • Protein Data Bank (file format)
    Protein Data Bank (file format)
    The Protein Data Bank file format is a textual file format describing the three dimensional structures of molecules held in the Protein Data Bank. The pdb format accordingly provides for description and annotation of protein and nucleic acid structures including atomic coordinates, observed...
    
    
• Voxel
  Voxel
  A voxel is a volume element, representing a value on a regular grid in three dimensional space. This is analogous to a pixel, which represents 2D image data in a bitmap...
  
  - one way of presenting 3D densities