The autoinducer-2 exporter superfamily

Journal of Molecular Microbiology and Biotechnology

Volumn 18, Issue 4, 2010, Pages 195-205

  Rettner, Rachael E ^a   Saier Jr , Milton H ^a  

^a UNIVERSITY OF CALIFORNIA SAN DIEGO   (United States)

Author keywords

Autoinducer; Evolution; Metabolite exporters; Phylogeny; Topology; Transport

Indexed keywords

ABC TRANSPORTER; BACTERIAL PROTEIN; GUANINE NUCLEOTIDE BINDING PROTEIN; PURINE NUCLEOTIDE; PUTATIVE NEUROTRANSMITTER; S RIBOSYLHOMOCYSTEINASE; TRANSPORTER OF QUORUM SENSING A PROTEIN; UNCLASSIFIED DRUG;

ESCHERICHIA COLI; INTRACELLULAR SIGNALING; NONHUMAN; NUCLEOTIDE METABOLISM; PROTEIN LOCALIZATION; PROTEIN MOTIF; REVIEW; SIGNAL TRANSDUCTION;

AMINO ACID SEQUENCE; BACTERIA; BACTERIAL PROTEINS; BIOLOGICAL TRANSPORT; CONSERVED SEQUENCE; HOMOSERINE; LACTONES; MOLECULAR SEQUENCE DATA; PHYLOGENY;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI;

EID: 77953579673     PISSN: 14641801     EISSN: None     Source Type: Journal    
DOI: 10.1159/000316420     Document Type: Review

References (48)

1. Ansaldi M, Marolt D, Stebe T, Mandic-Mu-le c I, Dubnau D: Specific activ ation of the Bacillus quorum-sensing systems by isoprenyl-ated pheromone variants. Mol Microbiol 2002; 44: 1561-1573
2. Bassler BL: Small talk. Cell-to-cell communication in bacteria. Cell 2002; 109:421-424
3. Ben Jacob E, Becker I, Shapira Y, Levine H: Bacterial linguistic communication and social intelligence. Trends Microbiol 2004; 12: 366-372
4. Ben-Jacob E, Shmueli H, Shochet O, Tenen-baum A: Adaptive self-organization during growth of bacterial colonies. Physica A 1992; 187: 378-424
5. Fux CA, Costerton JW, Stewart PS, Stoodley P: Survival strategies of infectious biofilms. Trends Microbiol 2005; 13: 34-40
6. Visick KL: Layers of signaling in a bacterium-host association. J Bacteriol 2005; 187: 3603-3606
7. Taga ME, Bassler BL: Chemical communication among bacteria. Proc Natl Acad Sci USA 2003; 100(suppl 2):14549-14554
8. Bassler BL, Losick R: Bacterially speaking. Cel l 2006; 125: 237-246
9. Bhinu VS: Insight into biofilm-associated microbial life. J Mol Microbiol Biotechnol 2005; 10: 15-21
10. Kolter R: Surfacing views of biofilm biology. Trends Microbiol 2005; 13: 1-2
11. Parsek MR, Greenberg EP: Sociomicrobiol-ogy: the connections between quorum sensing and biof ilms. Trends Microbiol 2005; 13: 27-33
12. Kaiser D: Signaling in myxobacteria. Annu Rev Microbiol 2004; 58: 75-98
13. Tiller JC, Liao CJ, Lewis K, Klibanov AM: Designing surfaces that kill bacteria on contact. Proc Natl Acad Sci USA 2001; 98: 5981-5985
14. Lewis K: Programmed death in bacteria. Mi-crobiol Mol Biol Rev 2000; 64:503-514
15. Camilli A, Bassler BL: Bacterial small-molecule signaling pathways. Science 2006; 311: 1113-1116
16. Evans K, Passador L, Srikumar R, Tsang E, Nezezon J, Poole K: Inf luence of the MexAB-OprM multidrug efflux system on quorum sensing in Pseudomonas aeruginosa . J Bacte-riol 1998; 180 : 5443-5447
17. Taga ME, Miller ST, Bassler BL: Lsr-mediat-ed transport and processing of AI-2 in Salmonella typhimurium . Mol Microbiol 2003; 50:1411-1427
18. Walters M, Sircili MP, Sperandio V: AI-3 synthesis is not dependent on luxS in Esche-richia coli . J Bacteriol 2006; 188 : 5668-5681
19. Chen X, Schauder S, Potier N, Van Dorsse-laer A, Pelczer I, Bassler BL, Hughson FM: Structural identification of a bacterial quorum-sensing signal containing boron. Nature 2002; 415:545-549
20. Herzberg M, Kaye IK, Peti W, Wood TK: YdgG (TqsA) controls biofilm formation in Escherichia coli K-12 through autoinducer 2 transport. J Bacteriol 2006; 188 : 587-598
21. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997; 25:3389-3402
22. Li W, Godzik A: Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics 2006; 22:1658-1659
23. Dayhoff MO, Barker WC, Hunt LT: Establishing homologies in protein sequences. Methods Enzymol 1983; 91:524-545
24. Thompson JD, Gibson TJ, Plewniak F, Jean-mougin F, Higgins DG: The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997; 25: 4876-4882
25. Zhai Y, Tchieu J, Saier MH Jr: A web-based Tree View (TV) program for the visualization of phylogenetic trees. J Mol Microbiol Biotechnol 2002; 4:69-70
26. Zhai Y, Saier MH Jr: A web-based program (WHAT) for the simultaneous prediction of hydropathy, amphipathicity, secondary structure and transmembrane topology for a single protein sequence. J Mol Microbiol Bio-technol 2001; 3:501-502
27. Devereux J, Haeberli P, Smithies O: A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res 1984; 12:387-395
28. Zhai Y, Saier MH Jr: A simple sensitive program for detecting internal repeats in sets of multiply aligned homologous proteins. J Mol Microbiol Biotechnol 2002; 4: 375-377
29. Galperin MY: Bacterial signal transduction network in a genomic perspective. Environ Microbiol 2004; 6:552-567
30. Ho YS, Burden LM, Hurley JH: Structure of the GAF domain, a ubiquitous signaling motif and a new class of cyclic GMP receptor. EMBO J 20 00; 19 : 5288-5299
31. Saier MH Jr, Feucht BU, McCaman MT: Regulation of intracellular adenosine cyclic 3':5'-monophosphate levels in Escherichia coli and Salmonella typhimurium. Evidence for energy-dependent excretion of the cyclic nucleotide. J Biol Chem 1975; 250:7593-7601
32. D'Andrea LD, Regan L: TPR proteins: the versatile helix. Trends Biochem Sci 2003; 28: 655-662
33. Galperin MY: Structural classification of bacterial response regulators: diversity of output domains and domain combinations. J Bacteriol 2006; 188: 4169-4182
34. Saier MH Jr, Tran CV, Barabote RD: TCDB: the Transporter Classification Database for membrane transport protein analyses and information. Nucleic Acids Res 2006; 34:D181-D186
35. Saier MH Jr: Computer-aided analyses of transport protein sequences: gleaning evidence concerning function, structure, biogenesis, and evolution. Microbiol Rev 1994; 58: 71-93
36. Busch W, Saier MH Jr: The transporter classification (TC) system, 2002. Crit Rev Biochem Mol Biol 2002; 37: 287-337
37. Saier MH Jr: A functional-phylogenetic classification system for transmembrane solute transporters. Microbiol Mol Biol Rev 2000; 64:354-411
38. Ye S, Li Y, Chen L, Jiang Y: Crystal structures of a ligand-free MthK gating ring: insights into the ligand gating mechanism of K + channels. Cell 2006; 126: 1161-1173
39. Jack DL, Paulsen IT, Saier MH: The amino acid/polyamine/organocation (APC) super-family of transporters specific for amino acids, polyamines and organocations. Microbiology 2000; 146:1797-1814
40. Jack DL, Yang NM, Saier MH Jr: The drug/ metabolite transporter superfamily. Eur J Biochem 2001; 268:3620-3639
41. Kennerknecht N, Sahm H, Yen MR, Patek M, Saier MH Jr, Eggeling L: Export of L-isoleu-cine from Corynebacterium glutamicum: a two-gene-encoded member of a new translo-cator family. J Bacteriol 2002; 184 : 3947-3956
42. Pao SS, Paulsen IT, Saier MH Jr: Major facilitator superfamily. Microbiol Mol Biol Rev 19 98; 62: 1-34
43. Saier MH Jr, Beatty JT, Goffeau A, Harley KT, Heijne WH, Huang SC, Jack DL, Jahn PS, Lew K, Liu J, Pao SS, Paulsen IT, Tseng TT, Virk PS: The major facilitator superfamily. J Mol Microbiol Biotechnol 1999; 1:257-279
44. Saier MH Jr, Eng BH, Fard S, Garg J, Hag-gerty DA, Hutchinson WJ, Jack DL, Lai EC, Liu HJ, Nusinew DP, Omar AM, Pao SS, Paulsen IT, Quan JA, Sliwinski M, Tseng TT, Wachi S, Young GB: Phylogenetic characterization of novel transport protein families revealed by genome analyses. Biochim Bio-phys Acta 1999; 1422:1-56
45. Tseng TT, Gratwick KS, Kollman J, Park D, Nies DH, Goffeau A, Saier MH Jr: The RND permease superfamily: an ancient, ubiquitous and diverse family that includes human disease and development proteins. J Mol Mi-crobiol Biotechnol 1999; 1:107-125
46. Vrljic M, Garg J, Bellmann A, Wachi S, Freudl R, Malecki MJ, Sahm H, Kozina VJ, Eggeling L, Saier MH Jr: The LysE superfam-ily: topology of the lysine exporter LysE of Corynebacterium glutamicum , a paradyme for a novel superfamily of transmembrane solute translocators. J Mol Microbiol Bio-technol 1999; 1:327-336
47. Zhai Y, Saier MH Jr: A web-based program for the prediction of average hydropathy, average amphipathicity and average similarity of multiply aligned homologous proteins. J Mol Microbiol Biotechnol 2001; 3: 285-286
48. Moller S, Croning MD, Apweiler R: Evaluation of methods for the prediction of membrane spanning regions. Bioinformatics 2001; 17:646-653