Literature DB >> 14681414

TransportDB: a relational database of cellular membrane transport systems.

Qinghu Ren1, Katherine H Kang, Ian T Paulsen.   

Abstract

TransportDB (http://www.membranetransport.org) is a relational database designed for describing the predicted cellular membrane transport proteins in organisms whose complete genome sequences are available. For each organism, the complete set of membrane transport systems was identified and classified into different types and families according to putative membrane topology, protein family, bioenergetics and substrate specificities. Web pages were created to provide user-friendly interfaces to easily access, query and download the data. Additional features, such as a BLAST search tool against known transporter protein sequences, comparison of transport systems from different organisms and phylogenetic trees of individual transporter families are also provided. TransportDB will be regularly updated with data obtained from newly sequenced genomes.

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Year:  2004        PMID： 14681414      PMCID： PMC308751          DOI： 10.1093/nar/gkh016

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


  28 in total

1.  Genome archeology leading to the characterization and classification of transport proteins.

Authors:  M H Saier
Journal:  Curr Opin Microbiol       Date:  1999-10       Impact factor: 7.934

2.  A comparative analysis of ABC transporters in complete microbial genomes.

Authors:  K Tomii; M Kanehisa
Journal:  Genome Res       Date:  1998-10       Impact factor: 9.043

3.  Towards detection of orthologues in sequence databases.

Authors:  Y P Yuan; O Eulenstein; M Vingron; P Bork
Journal:  Bioinformatics       Date:  1998       Impact factor: 6.937

Review 4.  Primary sodium ion translocating enzymes.

Authors:  P Dimroth
Journal:  Biochim Biophys Acta       Date:  1997-01-16

5.  Regulation of competence development and sugar utilization in Haemophilus influenzae Rd by a phosphoenolpyruvate:fructose phosphotransferase system.

Authors:  L P Macfadyen; I R Dorocicz; J Reizer; M H Saier; R J Redfield
Journal:  Mol Microbiol       Date:  1996-09       Impact factor: 3.501

Review 6.  A family of extracytoplasmic proteins that allow transport of large molecules across the outer membranes of gram-negative bacteria.

Authors:  T Dinh; I T Paulsen; M H Saier
Journal:  J Bacteriol       Date:  1994-07       Impact factor: 3.490

7.  Microbial genome analyses: global comparisons of transport capabilities based on phylogenies, bioenergetics and substrate specificities.

Authors:  I T Paulsen; M K Sliwinski; M H Saier
Journal:  J Mol Biol       Date:  1998-04-03       Impact factor: 5.469

Review 8.  Major facilitator superfamily.

Authors:  S S Pao; I T Paulsen; M H Saier
Journal:  Microbiol Mol Biol Rev       Date:  1998-03       Impact factor: 11.056

9.  Getting in or out: early segregation between importers and exporters in the evolution of ATP-binding cassette (ABC) transporters.

Authors:  W Saurin; M Hofnung; E Dassa
Journal:  J Mol Evol       Date:  1999-01       Impact factor: 2.395

Review 10.  Unified inventory of established and putative transporters encoded within the complete genome of Saccharomyces cerevisiae.

Authors:  I T Paulsen; M K Sliwinski; B Nelissen; A Goffeau; M H Saier
Journal:  FEBS Lett       Date:  1998-06-23       Impact factor: 4.124
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  89 in total

1.  The hydantoin transport protein from Microbacterium liquefaciens.

Authors:  Shun'ichi Suzuki; Peter J F Henderson
Journal:  J Bacteriol       Date:  2006-05       Impact factor: 3.490

2.  Characterization of a resistance-nodulation-cell division transporter system associated with the syr-syp genomic island of Pseudomonas syringae pv. syringae.

Authors:  Hyojeung Kang; Dennis C Gross
Journal:  Appl Environ Microbiol       Date:  2005-09       Impact factor: 4.792

3.  Comparative analysis and "expression space" coverage of the production of prokaryotic membrane proteins for structural genomics.

Authors:  Sachin Surade; Markus Klein; Peggy C Stolt-Bergner; Cornelia Muenke; Ankita Roy; Hartmut Michel
Journal:  Protein Sci       Date:  2006-09       Impact factor: 6.725

4.  Identification of transcriptome profiles and signaling pathways for the allelochemical juglone in rice roots.

Authors:  Wen-Chang Chi; Shih-Feng Fu; Tsai-Lien Huang; Yun-An Chen; Chi-Cien Chen; Hao-Jen Huang
Journal:  Plant Mol Biol       Date:  2011-11-05       Impact factor: 4.076

Review 5.  Clinically relevant chromosomally encoded multidrug resistance efflux pumps in bacteria.

Authors:  Laura J V Piddock
Journal:  Clin Microbiol Rev       Date:  2006-04       Impact factor: 26.132

Review 6.  How phosphotransferase system-related protein phosphorylation regulates carbohydrate metabolism in bacteria.

Authors:  Josef Deutscher; Christof Francke; Pieter W Postma
Journal:  Microbiol Mol Biol Rev       Date:  2006-12       Impact factor: 11.056

7.  Protein AQ_1862 from the hyperthermophilic bacterium Aquifex aeolicus is a porin and contains two conductance pathways of different selectivity.

Authors:  Ulrike Wedemeyer; Guohong Peng; Hartmut Michel; Klaus Hartung
Journal:  Biophys J       Date:  2007-06-22       Impact factor: 4.033

8.  Probing the conformation of the resting state of a bacterial multidrug ABC transporter, BmrA, by a site-directed spin labeling approach.

Authors:  Marie-Ange Do Cao; Serge Crouzy; Miyeon Kim; Michel Becchi; David S Cafiso; Attilio Di Pietro; Jean-Michel Jault
Journal:  Protein Sci       Date:  2009-07       Impact factor: 6.725

9.  A Neisseria meningitidis NMB1966 mutant is impaired for invasion of respiratory epithelial cells, survival in human blood and for virulence in vivo.

Authors:  Ming-Shi Li; Noel Y S Chow; Sunita Sinha; Denise Halliwell; Michelle Finney; Andrew R Gorringe; Mark W Watson; J Simon Kroll; Paul R Langford; Steven A R Webb
Journal:  Med Microbiol Immunol       Date:  2008-12-03       Impact factor: 3.402

10.  The transcriptional regulators NorG and MgrA modulate resistance to both quinolones and beta-lactams in Staphylococcus aureus.

Authors:  Que Chi Truong-Bolduc; David C Hooper
Journal:  J Bacteriol       Date:  2007-02-02       Impact factor: 3.490
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