TSdb specifications

Information


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

Publication for Transporter substrate database

TSdb citations

 (2)
library_books

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

2016
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 […]

library_books

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

2012
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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