TITLE

A COMPARATIVE STUDY OF PROTEIN STRUCTURE VISUALIZATION TOOLS FOR VARIOUS DISPLAY CAPABILITIES

AUTHOR(S)
Ansari, Shaheda N.; Iliyas, Sayyed
PUB. DATE
June 2011
SOURCE
Bioscience Discovery: An International Journal of Life Sciences;Jun2011, Vol. 2 Issue 2, p222
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
ABSTRACT
A molecular graphics visualization tool is required to view the structure that is encoded by atomic coordinate PDB files and to be able to manipulate the images to view the molecule from various perspectives. Without a proper tool, the PDB file will be read as a text file that lists each atom and its numerical coordinates in 3-D space. Thus researchers need tools that are capable of loading and displaying huge amount of data. Many tools have been developed to visualize a protein whose structure has been known. During present course of investigation a comparative study of seven commonly used freely available protein structure visualization tools viz. RasMol, Chime, Protein Explorer, Swiss-Pdb Viewer, WebMol, MOLMOL and Cn3D were made based on different display capabilities such as display of sequence, finding pattern in sequence and structure, highlighting selected amino acids in the sequence in structure, highlighting selected amino acids in the structure in sequence, hydrogen bonds, hydrogen bond distance, disulfide bond, Ramchandran plot, different types of surfaces and different rendering styles of the protein structure; that will help the researchers to select the appropriate tool in their study.
ACCESSION #
82476389

 

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