DBD--taxonomically broad transcription factor predictions: new content and functionality

DNA-binding domain (DBD) is a database of predicted sequence-specific DNA-binding transcription factors (TFs) for all publicly available proteomes. The proteomes have increased from 150 in the initial version of DBD to over 700 in the current version. All predicted TFs must contain a significant match to a hidden Markov model representing a sequencespecific DNA-binding domain family. Access to TF predictions is provided through http://transcriptionfactor.org, where new search options are now provided such as searching by gene names in model organisms, searching for all proteins in a particular DBD family and specific organism. We illustrate the application of this type of search facility by contrasting trends of DBD family occurrence throughout the tree of life, highlighting the clear partition between eukaryotic and prokaryotic DBD expansions. The website content has been expanded to include dedicated pages for each TF containing domain assignment details, gene names, links to extern...

• Type: Journal
• Year: 2008
• Where: NAR
• Authors: Derek Wilson, Varodom Charoensawan, Sarah K. Kummerfeld, Sarah A. Teichmann
• Keywords: DBD Family, Gene Names, NAR 2008, Sequence-specific Dna-binding Transcription