|
rdf:type |
|
|
lifeskim:mentions |
|
|
pubmed:issue |
Web Server issue
|
|
pubmed:dateCreated |
2007-7-16
|
|
pubmed:abstractText |
Understanding interactions between proteins and RNA is key to deciphering the mechanisms of many important biological processes. Here we describe RNABindR, a web-based server that identifies and displays RNA-binding residues in known protein-RNA complexes and predicts RNA-binding residues in proteins of unknown structure. RNABindR uses a distance cutoff to identify which amino acids contact RNA in solved complex structures (from the Protein Data Bank) and provides a labeled amino acid sequence and a Jmol graphical viewer in which RNA-binding residues are displayed in the context of the three-dimensional structure. Alternatively, RNABindR can use a Naive Bayes classifier trained on a non-redundant set of protein-RNA complexes from the PDB to predict which amino acids in a protein sequence of unknown structure are most likely to bind RNA. RNABindR automatically displays 'high specificity' and 'high sensitivity' predictions of RNA-binding residues. RNABindR is freely available at http://bindr.gdcb.iastate.edu/RNABindR.
|
|
pubmed:grant |
|
|
pubmed:commentsCorrections |
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-10550207,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-10592235,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-10871264,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-11160927,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-11500966,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-12887888,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-12912846,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-14527692,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-15852042,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-15853794,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-15853795,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-15956979,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-16141058,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-16141059,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-16790841,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-16845003,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-16982642,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-17083721,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-17094257,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-17130160,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17483510-17170008
|
|
pubmed:language |
eng
|
|
pubmed:journal |
|
|
pubmed:citationSubset |
IM
|
|
pubmed:chemical |
|
|
pubmed:status |
MEDLINE
|
|
pubmed:month |
Jul
|
|
pubmed:issn |
1362-4962
|
|
pubmed:author |
|
|
pubmed:issnType |
Electronic
|
|
pubmed:volume |
35
|
|
pubmed:owner |
NLM
|
|
pubmed:authorsComplete |
Y
|
|
pubmed:pagination |
W578-84
|
|
pubmed:dateRevised |
2011-9-26
|
|
pubmed:meshHeading |
pubmed-meshheading:17483510-Amino Acid Motifs,
pubmed-meshheading:17483510-Amino Acid Sequence,
pubmed-meshheading:17483510-Amino Acids,
pubmed-meshheading:17483510-Animals,
pubmed-meshheading:17483510-Bayes Theorem,
pubmed-meshheading:17483510-Binding Sites,
pubmed-meshheading:17483510-Computational Biology,
pubmed-meshheading:17483510-Databases, Protein,
pubmed-meshheading:17483510-Internet,
pubmed-meshheading:17483510-Models, Molecular,
pubmed-meshheading:17483510-Molecular Sequence Data,
pubmed-meshheading:17483510-Protein Conformation,
pubmed-meshheading:17483510-Proteins,
pubmed-meshheading:17483510-RNA,
pubmed-meshheading:17483510-Software
|
|
pubmed:year |
2007
|
|
pubmed:articleTitle |
RNABindR: a server for analyzing and predicting RNA-binding sites in proteins.
|
|
pubmed:affiliation |
Department of Genetics, Development & Cell Biology, Bioinformatics & Computational Biology Program, Iowa State University, Ames, Iowa 50011, USA.
|
|
pubmed:publicationType |
Journal Article,
Research Support, U.S. Gov't, Non-P.H.S.,
Research Support, N.I.H., Extramural
|
