The Transporter Classification Database: recent advances.
The Transporter Classification Database (TCDB), freely accessible at http://www.tcdb.org, is a relational database containing sequence, structural, functional and evolutionary information about transport systems from a variety of living organisms, based on the International Union of Biochemistry and Molecular Biology-approved transporter classification (TC) system. It is a curated repository for factual information compiled largely from published references. It uses a functional/phylogenetic system of classification, and currently encompasses about 5000 representative transporters and putative transporters in more than 500 families. We here describe novel software designed to support and extend the usefulness of TCDB. Our recent efforts render it more user friendly, incorporate machine learning to input novel data in a semiautomatic fashion, and allow analyses that are more accurate and less time consuming. The availability of these tools has resulted in recognition of distant phylogenetic relationships and tremendous expansion of the information available to TCDB users.
Saier
Milton H
MH
Division of Biological Sciences and Department of Computer Science and Engineering, University of California at San Diego, La Jolla, CA 92093-0116, USA. msaier@ucsd.edu
Yen
Ming Ren
MR
Noto
Keith
K
Tamang
Dorjee G
DG
Elkan
Charles
C
D001185:Artificial Intelligence; D030562:Databases, Protein; D026901:Membrane Transport Proteins / Q000737:chemistry / Q000145:classification* / Q000235:genetics; D010802:Phylogeny; D017386:Sequence Homology, Amino Acid
D026901:Membrane Transport Proteins