Literature DB >> 26546518

The Transporter Classification Database (TCDB): recent advances.

Milton H Saier1, Vamsee S Reddy2, Brian V Tsu3, Muhammad Saad Ahmed4, Chun Li4, Gabriel Moreno-Hagelsieb5.   

Abstract

The Transporter Classification Database (TCDB; http://www.tcdb.org) is a freely accessible reference database for transport protein research, which provides structural, functional, mechanistic, evolutionary and disease/medical information about transporters from organisms of all types. TCDB is the only transport protein classification database adopted by the International Union of Biochemistry and Molecular Biology (IUBMB). It consists of more than 10,000 non-redundant transport systems with more than 11 000 reference citations, classified into over 1000 transporter families. Transporters in TCDB can be single or multi-component systems, categorized in a functional/phylogenetic hierarchical system of classes, subclasses, families, subfamilies and transport systems. TCDB also includes updated software designed to analyze the distinctive features of transport proteins, extending its usefulness. Here we present a comprehensive update of the database contents and features and summarize recent discoveries recorded in TCDB.
© The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Year:  2015        PMID: 26546518      PMCID: PMC4702804          DOI: 10.1093/nar/gkv1103

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  68 in total

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Journal:  J Mol Microbiol Biotechnol       Date:  1999-08

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Authors:  Y Zhai; M H Saier
Journal:  J Mol Microbiol Biotechnol       Date:  2001-10

Review 3.  Mechanisms of oxidative protein folding in the bacterial cell envelope.

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Review 4.  Homologues of archaeal rhodopsins in plants, animals and fungi: structural and functional predications for a putative fungal chaperone protein.

Authors:  Y Zhai; W H Heijne; D W Smith; M H Saier
Journal:  Biochim Biophys Acta       Date:  2001-04-02

5.  MAFFT multiple sequence alignment software version 7: improvements in performance and usability.

Authors:  Kazutaka Katoh; Daron M Standley
Journal:  Mol Biol Evol       Date:  2013-01-16       Impact factor: 16.240

6.  TCDB: the Transporter Classification Database for membrane transport protein analyses and information.

Authors:  Milton H Saier; Can V Tran; Ravi D Barabote
Journal:  Nucleic Acids Res       Date:  2006-01-01       Impact factor: 16.971

Review 7.  Biophysical Detection of Diversity and Bias in GPCR Function.

Authors:  Werner C Jaeger; Stephen P Armstrong; Stephen J Hill; Kevin D G Pfleger
Journal:  Front Endocrinol (Lausanne)       Date:  2014-03-05       Impact factor: 5.555

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Journal:  Nucleic Acids Res       Date:  2013-12-01       Impact factor: 16.971

Review 9.  Diversity in ABC transporters: type I, II and III importers.

Authors:  Austin J Rice; Aekyung Park; Heather W Pinkett
Journal:  Crit Rev Biochem Mol Biol       Date:  2014-08-26       Impact factor: 8.250

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Journal:  Nucleic Acids Res       Date:  2014-11-26       Impact factor: 16.971

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  254 in total

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Journal:  Appl Microbiol Biotechnol       Date:  2020-05-30       Impact factor: 4.813

Review 3.  Transport protein evolution deduced from analysis of sequence, topology and structure.

Authors:  Milton H Saier
Journal:  Curr Opin Struct Biol       Date:  2016-06-04       Impact factor: 6.809

4.  Roles of membrane transporters: connecting the dots from sequence to phenotype.

Authors:  Rakesh David; Caitlin S Byrt; Stephen D Tyerman; Matthew Gilliham; Stefanie Wege
Journal:  Ann Bot       Date:  2019-09-24       Impact factor: 4.357

5.  Global Distribution Patterns and Pangenomic Diversity of the Candidate Phylum "Latescibacteria" (WS3).

Authors:  Ibrahim F Farag; Noha H Youssef; Mostafa S Elshahed
Journal:  Appl Environ Microbiol       Date:  2017-05-01       Impact factor: 4.792

6.  Structural basis for substrate binding and specificity of a sodium-alanine symporter AgcS.

Authors:  Jinming Ma; Hsiang-Ting Lei; Francis E Reyes; Silvia Sanchez-Martinez; Maen F Sarhan; Johan Hattne; Tamir Gonen
Journal:  Proc Natl Acad Sci U S A       Date:  2019-01-18       Impact factor: 11.205

7.  A Novel Transcriptional Regulator Related to Thiamine Phosphate Synthase Controls Thiamine Metabolism Genes in Archaea.

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8.  The Membrane Attack Complex/Perforin Superfamily.

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Journal:  J Mol Microbiol Biotechnol       Date:  2017-11-17

9.  In silico characterization of the global Geobacillus and Parageobacillus secretome.

Authors:  Pedro H Lebre; Habibu Aliyu; Pieter De Maayer; Don A Cowan
Journal:  Microb Cell Fact       Date:  2018-10-03       Impact factor: 5.328

10.  Complementary α-arrestin-ubiquitin ligase complexes control nutrient transporter endocytosis in response to amino acids.

Authors:  Vasyl Ivashov; Johannes Zimmer; Sinead Schwabl; Jennifer Kahlhofer; Sabine Weys; Ronald Gstir; Thomas Jakschitz; Leopold Kremser; Günther K Bonn; Herbert Lindner; Lukas A Huber; Sebastien Leon; Oliver Schmidt; David Teis
Journal:  Elife       Date:  2020-08-03       Impact factor: 8.140

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