About: Volume Area Dihedral Angle Reporter

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Volume, Area, Dihedral Angle Reporter (VADAR) is a freely available protein structure validation web server that was developed as a collaboration between Dr. Brian Sykes and Dr. David Wishart at the University of Alberta. VADAR consists of over 15 different algorithms and programs for assessing and validating peptide and protein structures from their PDB coordinate data. VADAR is capable of determining secondary structure (using three different algorithms), identifying and classifying six different types of beta turns, determining and calculating the strength of C=O -- N-H hydrogen bonds, calculating residue-specific accessible surface areas (ASA), calculating residue volumes, determining backbone and side chain torsion angles (phi, psi, omega and chi angles), assessing local structure qua

Attributes	Values
rdf:type	Thing schema:CreativeWork work wikidata:Q386724 Database dul:InformationObject Biological database
rdfs:label	Volume Area Dihedral Angle Reporter (en)
rdfs:comment	Volume, Area, Dihedral Angle Reporter (VADAR) is a freely available protein structure validation web server that was developed as a collaboration between Dr. Brian Sykes and Dr. David Wishart at the University of Alberta. VADAR consists of over 15 different algorithms and programs for assessing and validating peptide and protein structures from their PDB coordinate data. VADAR is capable of determining secondary structure (using three different algorithms), identifying and classifying six different types of beta turns, determining and calculating the strength of C=O -- N-H hydrogen bonds, calculating residue-specific accessible surface areas (ASA), calculating residue volumes, determining backbone and side chain torsion angles (phi, psi, omega and chi angles), assessing local structure qua (en)
foaf:homepage	http://vadar.wishartlab.com/
dc:description	Structure Validation Server
dct:subject	Biological databases
Wikipage page ID	42639015 (xsd:integer)
Wikipage revision ID	1070319786 (xsd:integer)
Link from a Wikipage to another Wikipage	Atomic radii Peptide University of Alberta Van der Waals force Protein structure prediction Protein topology NMR spectroscopy Stereochemistry Crystallography Structure validation Protein Data Bank Protein structure Backbone chain Biological databases DSSP (hydrogen bond estimation algorithm) Beta sheets Protein Structure Evaluation Suite & Server Accessible surface area IUPAC X-ray crystallography Nuclear magnetic resonance Root-mean-square deviation Structural bioinformatics Resolution by Proxy Random coil Van der Waals radii Secondary structure Beta-turn Homology modelling
Link from a Wikipage to an external page	http://vadar.wishartlab.com/
sameAs	Volume Area Dihedral Angle Reporter Volume Area Dihedral Angle Reporter Volume Area Dihedral Angle Reporter
dbp:wikiPageUsesTemplate	dbt:Infobox_biodatabase dbt:Reflist
description	Structure Validation Server (en)
format	Data Input: PDB coordinate file; Data Output: Text and graphical data on protein structure features and quality (en)
frequency	-6.31152E7 (second)
url	http://vadar.wishartlab.com/
Center	University of Alberta and The Metabolomics Innovation Centre (en)
has abstract	Volume, Area, Dihedral Angle Reporter (VADAR) is a freely available protein structure validation web server that was developed as a collaboration between Dr. Brian Sykes and Dr. David Wishart at the University of Alberta. VADAR consists of over 15 different algorithms and programs for assessing and validating peptide and protein structures from their PDB coordinate data. VADAR is capable of determining secondary structure (using three different algorithms), identifying and classifying six different types of beta turns, determining and calculating the strength of C=O -- N-H hydrogen bonds, calculating residue-specific accessible surface areas (ASA), calculating residue volumes, determining backbone and side chain torsion angles (phi, psi, omega and chi angles), assessing local structure quality (through numerous quality indices), evaluating global structure quality, and identifying residue "outliers" (residues with unusual structural features). The results have been validated through extensive comparison to published data and careful visual inspection. VADAR produces both text and graphical output with most of the quantitative data presented in easily viewed tables. In particular, VADAR's output is presented in a vertical, tabular format with most of the sequence data, residue numbering and any other calculated property or feature presented from top to bottom, rather than from left to right. (en)
curation	Manually curated (en)
laboratory	Dr. David Wishart (en)
prov:wasDerivedFrom	wikipedia-en:Volume_Area_Dihedral_Angle_Reporter?oldid=1070319786&ns=0
page length (characters) of wiki page	14159 (xsd:nonNegativeInteger)
foaf:isPrimaryTopicOf	wikipedia-en:Volume_Area_Dihedral_Angle_Reporter
is Link from a Wikipage to another Wikipage of	VADAR
is Wikipage redirect of	VADAR
is foaf:primaryTopic of	wikipedia-en:Volume_Area_Dihedral_Angle_Reporter

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