Paper Info
Title
Loc3d: Annotate Sub-Cellular Localization For Protein Structures
Abstract
LOC3D (http://cubic.bioc.columbia.edu/db/LOC3d/) is both a weekly-updated database and a web server for predictions of sub-cellular localization for eukaryotic proteins of known three-dimensional (3D) structure. Localization is predicted using four different methods: (i) PredictNLS, prediction of nuclear proteins through nuclear localization signals; (ii) LOChom, inferring localization through sequence homology; (iii) LOCkey, inferring localization through automatic text analysis of SWISS-PROT keywords; and (iv) LOC3Dini, ab initio prediction through a system of neural networks and vector support machines. The final prediction is based on the method that predicts localization with the highest confidence. The LOC3D database currently contains predictions for >8700 eukaryotic protein chains taken from the Protein Data Bank (PDB). The web server can be used to predict sub-cellular localization for proteins for which only a predicted structure is available from threading servers. This makes the resource of particular interest to structural genomics initiatives.
Year
DOI
Venue
2003
10.1093/nar/gkg514
NUCLEIC ACIDS RESEARCH
Keywords
Field
DocType
neural network,three dimensional,protein data bank,internet,text analysis,proteins,nuclear localization signal,protein structure,protein conformation
Biology,Nuclear localization sequence,Nuclear protein,Genomics,Sequence homology,Bioinformatics,Computational biology,Protein Data Bank,Genetics,Web server,Protein structure
Journal
Volume
Issue
ISSN
31
13
0305-1048
Citations 
PageRank 
References 
8
0.84
8
Authors
2
Name
Order
Citations
PageRank
Rajesh Nair1737.60
Burkhard Rost279588.14