PolyPhen: prediction of functional effect of human nsSNPs

PolyPhen: prediction of functional effect
of human nsSNPs

PolyPhen (=Polymorphism Phenotyping) is a tool which predicts possible impact of an amino acid substitution on the structure and function of a human protein using straightforward physical and comparative considerations

Fri Apr 6 17:30 EDT 2012:: Dear PolyPhen users! Please be aware that this service has been discontinued and replaced with PolyPhen-2.
(Click on the link above if you are not transferred automatically after 10 seconds.)
Wed Mar 31 07:30 EDT 2010:: New version of the PolyPhen web server has been released. PolyPhen-2 includes numerous improvements, as well as a simple and efficient batch query web interface. Also available as a standalone software for Linux / Mac OS X. We would appreciate your feedback.

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Query data

Help
PolyPhen description

SNP data collection
Precomputed data for human nsSNPs from dbSNP database

References
Papers on the method

SNP2Prot
A tool to map human DNA variation onto proteins. Please use it if you start with DNA sequences and are not sure whether your SNP is non-synonymous

dbSNP Database
Single Nucleotide Polymorphism Database at NCBI

Examples
Examples of PolyPhen output

Database statistics
Statistics on databases used by PolyPhen

Feedback
E-mail us

Protein identifier (accession or name) from the UniProt database
OR

Amino acid sequence in FASTA format

Position Substitution AA₁ AA₂

Description

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Query options

Structural database		PQS PDB
Sort hits by		Identity E-value
Map to mismatch		No Yes
Calculate structural parameters		For first hit only For all hits
Calculate contacts		For first hit only For all hits
Minimal alignment length
Minimal identity in alignment
Maximal gap length in alignment
Threshold for contacts		Å