TSdb specifications


Unique identifier OMICS_07188
Name TSdb
Alternative name Transporter substrate database
Restrictions to use None
Maintained No

Publication for Transporter substrate database

TSdb citations


Exploring complex cellular phenotypes and model guided strain design with a novel genome scale metabolic model of Clostridium thermocellum DSM 1313 implementing an adjustable cellulosome

Biotechnol Biofuels
PMCID: 5012057
PMID: 27602057
DOI: 10.1186/s13068-016-0607-x

[…] subjected them to reciprocal blast hit (RBH) and hmmscan [] to determine similar genes in DSM 1313. For RBH, we used 1e-50 and blast length of fifty amino acids as cut-offs. The third method used the Transporter Substrate Database [] to extract protein sequences for each substrate exchange reaction within the model and compared them to the genome sequence of DSM 1313 with a cutoff of one for hmmsc […]


Current opportunities and challenges in microbial metagenome analysis—a bioinformatic perspective

Brief Bioinform
PMCID: 3504927
PMID: 22966151
DOI: 10.1093/bib/bbs039

[…] O [] or PSORT-B []). Also, dedicated databases are available for special functions, for example the CAZY [, ] and dbCAN (http://csbl.bmb.uga.edu/dbCAN/) databases for carbohydrate-active enzymes, the TSdb [] and TCDB [, ] databases for transporters and the MetaBioMe [] database for enzymes with biotechnological prospects. The resulting annotations are then used as a basis for functional data minin […]

TSdb institution(s)
Center for Bioinformatics, National Laboratory of Protein Engineering and Plant Genetic Engineering, College of Life Sciences, Peking University, Beijing, China

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