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Escherichia coli K-12 substr. MG1655 Polypeptide: Autoinducer-2 ABC transporter - membrane subunit



Gene: lsrD Accession Numbers: G6802 (EcoCyc), b1515, ECK1508

Synonyms: ydeZ

Regulation Summary Diagram: ?

Component of: autoinducer-2 ABC transporter (extended summary available)

Summary:
Based on sequence similarity lsrD is predicted to encode the periplasmic binding protein of an AI-2 ABC transporter [Xavier05].

lsrD is required for growth under optimum growth conditions (rich medium at 37°C), but not under cold conditions (15°C) or in minimal medium [Serina04].

Gene Citations: [Wang05, Wang05a]

Locations: inner membrane

Map Position: [1,602,071 -> 1,603,063] (34.53 centisomes)
Length: 993 bp / 330 aa

Molecular Weight of Polypeptide: 34.456 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0005061 , EchoBASE:EB3569 , EcoGene:EG13808 , EcoliWiki:b1515 , OU-Microarray:b1515 , PortEco:lsrD , PR:PRO_000023131 , Protein Model Portal:P0AFS1 , RefSeq:NP_416032 , RegulonDB:G6802 , String:511145.b1515 , UniProt:P0AFS1

Relationship Links: InterPro:IN-FAMILY:IPR001851 , Pfam:IN-FAMILY:PF02653

In Paralogous Gene Group: 189 (15 members)

Gene-Reaction Schematic: ?

Genetic Regulation Schematic: ?

GO Terms:

Biological Process: GO:0006810 - transport Inferred by computational analysis [UniProtGOA11a, GOA01a]
Molecular Function: GO:0005215 - transporter activity Inferred by computational analysis [GOA01a]
Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11, UniProtGOA11a, DiazMejia09, Daley05]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a, GOA01a]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11a]
GO:0043190 - ATP-binding cassette (ABC) transporter complex Inferred by computational analysis [Xavier05]

MultiFun Terms: cell structure membrane
transport Channel-type Transporters Pyrophosphate Bond (ATP; GTP; P2) Hydrolysis-driven Active Transporters The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases ABC superfamily, membrane component

Essentiality data for lsrD knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]

Subunit of: autoinducer-2 ABC transporter

Synonyms: LsrACDB

Subunit composition of autoinducer-2 ABC transporter = [LsrB][LsrD][LsrC][LsrA]2
         Autoinducer-2 ABC transporter - periplasmic binding protein = LsrB (summary available)
         Autoinducer-2 ABC transporter - membrane subunit = LsrD (summary available)
         Autoinducer-2 ABC transporter - membrane subunit = LsrC (summary available)
         AI-2 ABC transporter - ATP binding subunit = LsrA (summary available)

Summary:
Based on its similarity to the lsr operon in Salmonella typhimurium the LsrACDB ABC transporter is predicted to transport the quorum sensing autoinducer molecule AI-2. The Lsr ACDB transporter is active upon entry into stationary phase [Xavier05]. E. coli strains with lsrCDB or with lsrACDBFG deletions remove AI-2 from culture medium significantly more slowly than wild type when grown in rich media without glucose. No difference is observed when cells are grown in the presence of glucose [Xavier05, Wang05]. The presence of a second low-affinity AI-2 transporter has been suggested [Xavier05].

LsrA is the putative ATP-binding component. LsrC and LsrD are putative membrane components. LsrB is the putative periplasmic binding component. The genes lsrA, lsrC, lsrD and lsrB are located in a polycistronic operon that includes lsrF encoding a predicted sugar aldolase, lsrG encoding a protein involved in AI-2 degradation and tam encoding a protein with trans-aconitate methyl-transferase activity [Wang05a]. The lsr operon is subject to complex transcriptional regulation involving cyclic AMP-CRP and the LsrR repressor [Wang05, Xue09].

The function of AI-2 in E. coli K-12 remains unclear - it may play a role in interspecies signaling or it may be a toxic metabolite that is excluded during early growth but taken up and metabolised at a later stage [Winzer02] (see also autoinducer AI-2 biosynthesis I).

lsr: luxS regulated

Credits:
Last-Curated ? 29-Jun-2014 by Mackie A , Macquarie University


Enzymatic reaction of: autoinducer-2 ABC transporter


Sequence Features

Feature Class Location Citations Comment
Transmembrane-Region 5 -> 25
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 43 -> 63
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 68 -> 88
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 89 -> 109
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 116 -> 136
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 160 -> 180
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 210 -> 230
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 238 -> 258
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 259 -> 279
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 286 -> 306
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;


Gene Local Context (not to scale): ?

Transcription Units:

Notes:

History:
Markus Krummenacker on Tue Oct 14, 1997:
Gene object created from Blattner lab Genbank (v. M52) entry.


References

Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554

Daley05: Daley DO, Rapp M, Granseth E, Melen K, Drew D, von Heijne G (2005). "Global topology analysis of the Escherichia coli inner membrane proteome." Science 308(5726);1321-3. PMID: 15919996

DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114

Gerdes03: Gerdes SY, Scholle MD, Campbell JW, Balazsi G, Ravasz E, Daugherty MD, Somera AL, Kyrpides NC, Anderson I, Gelfand MS, Bhattacharya A, Kapatral V, D'Souza M, Baev MV, Grechkin Y, Mseeh F, Fonstein MY, Overbeek R, Barabasi AL, Oltvai ZN, Osterman AL (2003). "Experimental determination and system level analysis of essential genes in Escherichia coli MG1655." J Bacteriol 185(19);5673-84. PMID: 13129938

GOA01a: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

Joyce06: Joyce AR, Reed JL, White A, Edwards R, Osterman A, Baba T, Mori H, Lesely SA, Palsson BO, Agarwalla S (2006). "Experimental and computational assessment of conditionally essential genes in Escherichia coli." J Bacteriol 188(23);8259-71. PMID: 17012394

Serina04: Serina S, Nozza F, Nicastro G, Faggioni F, Mottl H, Deho G, Polissi A (2004). "Scanning the Escherichia coli chromosome by random transposon mutagenesis and multiple phenotypic screening." Res Microbiol 155(8);692-701. PMID: 15380559

UniProt10a: UniProt Consortium (2010). "UniProt version 2010-07 released on 2010-06-15 00:00:00." Database.

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries."

UniProtGOA11a: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

Wang05: Wang L, Hashimoto Y, Tsao CY, Valdes JJ, Bentley WE (2005). "Cyclic AMP (cAMP) and cAMP receptor protein influence both synthesis and uptake of extracellular autoinducer 2 in Escherichia coli." J Bacteriol 187(6);2066-76. PMID: 15743955

Wang05a: Wang L, Li J, March JC, Valdes JJ, Bentley WE (2005). "luxS-dependent gene regulation in Escherichia coli K-12 revealed by genomic expression profiling." J Bacteriol 187(24);8350-60. PMID: 16321939

Winzer02: Winzer K, Hardie KR, Williams P (2002). "Bacterial cell-to-cell communication: sorry, can't talk now - gone to lunch!." Curr Opin Microbiol 5(2);216-22. PMID: 11934621

Xavier05: Xavier KB, Bassler BL (2005). "Regulation of uptake and processing of the quorum-sensing autoinducer AI-2 in Escherichia coli." J Bacteriol 187(1);238-48. PMID: 15601708

Xue09: Xue T, Zhao L, Sun H, Zhou X, Sun B (2009). "LsrR-binding site recognition and regulatory characteristics in Escherichia coli AI-2 quorum sensing." Cell Res 19(11);1258-68. PMID: 19636340

Other References Related to Gene Regulation

GamaCastro08: Gama-Castro S, Jimenez-Jacinto V, Peralta-Gil M, Santos-Zavaleta A, Penaloza-Spinola MI, Contreras-Moreira B, Segura-Salazar J, Muniz-Rascado L, Martinez-Flores I, Salgado H, Bonavides-Martinez C, Abreu-Goodger C, Rodriguez-Penagos C, Miranda-Rios J, Morett E, Merino E, Huerta AM, Trevino-Quintanilla L, Collado-Vides J (2008). "RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation." Nucleic Acids Res 36(Database issue);D120-4. PMID: 18158297


Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 18.5 on Sun Dec 21, 2014, BIOCYC14B.