ProFunc: a server for predicting protein function from 3D structure
Top Cited Papers
Open Access
- 1 July 2005
- journal article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 33 (Web Server) , W89-W93
- https://doi.org/10.1093/nar/gki414
Abstract
ProFunc (http://www.ebi.ac.uk/thornton-srv/databases/ProFunc) is a web server for predicting the likely function of proteins whose 3D structure is known but whose function is not. Users submit the coordinates of their structure to the server in PDB format. ProFunc makes use of both existing and novel methods to analyse the protein's sequence and structure identifying functional motifs or close relationships to functionally characterized proteins. A summary of the analyses provides an at-a-glance view of what each of the different methods has found. More detailed results are available on separate pages. Often where one method has failed to find anything useful another may be more forthcoming. The server is likely to be of most use in structural genomics where a large proportion of the proteins whose structures are solved are of hypothetical proteins of unknown function. However, it may also find use in a comparative analysis of members of large protein families. It provides a convenient compendium of sequence and structural information that often hold vital functional clues to be followed up experimentally.Keywords
This publication has 26 references indexed in Scilit:
- The SUPERFAMILY database in 2004: additions and improvementsNucleic Acids Research, 2004
- The Catalytic Site Atlas: a resource of catalytic sites and residues identified in enzymes using structural dataNucleic Acids Research, 2004
- The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene OntologyNucleic Acids Research, 2004
- UniProt: the Universal Protein knowledgebaseNucleic Acids Research, 2004
- An algorithm for constraint-based structural template matching: application to 3D templates with statistical analysisBioinformatics, 2003
- PISCES: a protein sequence culling serverBioinformatics, 2003
- A novel main-chain anion-binding site in proteins: the nest. A particular combination of φ,ψ values in successive residues gives rise to anion-binding sites that occur commonly and are found often at functionally important regions 1 1Edited by J. ThorntonJournal of Molecular Biology, 2002
- InterProScan – an integration platform for the signature-recognition methods in InterProBioinformatics, 2001
- Gene Ontology: tool for the unification of biologyNature Genetics, 2000
- The Protein Data BankNucleic Acids Research, 2000