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Links tagged with 'protein'

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FunSimMatDatabase Content

http://www.funsimmat.de

Protein > Databases

FunSimMat is a functional similarity database and web service for ranking genes/proteins by function. It provides different semantic similarity measures for Gene Ontology terms and offers functional similarity values for proteins contained in UniProtKB and for protein families/domains in Pfam and SMART. Users can perform semantic similarity searches with GO terms and functional similarity searches with proteins or protein families. FunSimMat also supports prioritizing disease gene candidates.

This content is being maintained by albrecht.

NAR Database Issue 2010
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tagsbioinformatics computational biology controlled vocabulary disease functional similarity gene gene database gene ontology gene prioritization protein protein database protein prioritization

MolProbityTool Content

http://molprobity.biochem.duke.edu/

Protein > 3-D Structure Retrieval/Viewing
RNA > Structure Prediction, Visualization, and Design

MolProbity is a structure validation web service for diagnosing problems in 3D models of proteins, nucleic acids or complexes. It adds and optimizes H atoms (correcting 180° flipped Asn/Gln/His sidechains), and then calculates global and local validation for all-atom contacts (steric clashes, H-bonds & vdW), covalent geometry, and conformation (Ramachandran & rotamers for protein, ribose puckers & suite conformers for RNA). Results are displayed online as 3D graphics and sortable charts.

This content is being maintained by dcrjsr.

NAR Web Server Issue 2004NAR Web Server Issue 2007
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tagscomputational biology hydrogen bonding hydrogens molecular graphics molecular models molecular structure nucleic acid conformation protein protein conformation reproducibility of results rna structure validation three-dimensional imaging

PhyleasProgTool Content

http://phyleasprog.inra.fr

Protein > Phylogeny Reconstruction

PhyleasProg is a web server for evolutionary analyses. Users input a list of Ensembl protein IDs and a list of species as inputs.

This content is being maintained by grpascal.

NAR Web Server Issue 2011
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tagsComparative genomics evolution gene multiple sequence alignement phylogenetic tree phylogeny protein protein sequence analysis proteins sequence alignment structure synteny