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Gene |

Product(s) |

Expression|

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Standard Name	mqsR
Gene Synonym(s)	ygiU, ECK3013, b3022, JW2990^[1]^[2], JW2990
Product Desc.	RNase interferase^[3]^[4], Motility quorum-sensing regulator^[5], Toxin mitigted by MqsA (YgiT) antitoxin^[3]^[6], works through QseBC and AI-2^[5], First identified as induced in biofilms^[7], 2nd protein to be identified that when deleted, decreases persistence^[8]
Product Synonyms(s)	B3022^[2]^[1], YgiU^[2]^[1], MqsR^[5], ECK3013, JW2990, ygiU, b3022
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): ygiT^[2]
Regulation/Activity
Quick Links
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Notes

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msqR was first identified as induced during biofilm formation^[7]. Toxin MsqR could be cloned in an ara vector unless antitoxin YgiT is upreguated (Shah, 2006).^[9]. Encodes a mRNA interferase^[3].

Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	mqsR
Mnemonic	Motility quorum-sensing regulator
Synonyms	ygiU, ECK3013, b3022, JW2990^[1]^[2], JW2990
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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	68.24 minutes	MG1655: 3166566..3166270 <gbrowseImage> name=NC_000913:3166270..3166566 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3102420..3102716 <gbrowseImage> name=NC_012967:3102420..3102716 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3053418..3053714 <gbrowseImage> name=NC_012759:3053418..3053714 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3167200..3166904 <gbrowseImage> name=NC_007779:3166904..3167200 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3264311..3264015 <gbrowseImage> name=NC_010473:3264015..3264311 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
mqsR720(del)::kan					PMID:16738554	CGSC:106248
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource

Resource Type

Source

Notes/Reference

Plasmid clone

Shigen

PMID:16769691

Status:

Primer 1:

Primer 2:

17B2

Kohara Phage

Genobase

PMID:3038334

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:G7572	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13023	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004130	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947500	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2841	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009925	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name	MqsR^[5]
Synonyms	B3022^[2]^[1], YgiU^[2]^[1], MqsR^[5], ECK3013, JW2990, ygiU, b3022
Product description	RNase interferase^[3]^[4], Motility quorum-sensing regulator^[5], Toxin mitigted by MqsA (YgiT) antitoxin^[3]^[6], works through QseBC and AI-2^[5], First identified as induced in biofilms^[7], 2nd protein to be identified that when deleted, decreases persistence^[8]
EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0004521	endoribonuclease activity	PMID:19690171	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0005515	protein binding	PMID:19690171	IPI: Inferred from Physical Interaction	UniProtKB:Q46864	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009372	quorum sensing	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0673	P	Seeded from EcoCyc (v14.0)	complete
	GO:0017148	negative regulation of translation	PMID:19690171	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc (v14.0)	complete
	GO:0043488	regulation of mRNA stability	PMID:19690171	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc (v14.0)	complete
	GO:0044010	single-species biofilm formation	PMID:16352847	IMP: Inferred from Mutant Phenotype		P	Seeded from EcoCyc (v14.0)	complete
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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	References	Evidence
Protein	yfdP	PMID:16606699	Experiment(s):EBI-1144562
Protein	yahO	PMID:16606699	Experiment(s):EBI-1144562
Protein	yqjK	PMID:16606699	Experiment(s):EBI-1144562
Protein	ygbA	PMID:16606699	Experiment(s):EBI-1144562
Protein	ihfA	PMID:16606699	Experiment(s):EBI-1144562
Protein	rpsC	PMID:16606699	Experiment(s):EBI-1144562
Protein	groL	PMID:16606699	Experiment(s):EBI-1144562
Protein	ygfX	PMID:16606699	Experiment(s):EBI-1144562
Protein	tnaA	PMID:16606699	Experiment(s):EBI-1144562
Protein	ybaA	PMID:16606699	Experiment(s):EBI-1144562
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Description	Evidence	Reference/Source	Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence	at EcoCyc MEKRTPHTRL SQVKKLVNAG QVRTTRSALL NADELGLDFD GMCNVIIGLS ESDFYKSMTT YSDHTIWQDV YRPRLVTGQV YLKITVIHDV LIVSFKEK
Length	98
Mol. Wt	11.231 kDa
pI	9.1 (calculated)
Extinction coefficient	11,460 - 11,585 (calc based on 4 Y, 1 W, and 1 C residues)
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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type	Residues	Description	Notes	References
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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=mqsR taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:16130918	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947500	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009925	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:Q46865	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G7572	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13023	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947500	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004130	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2841	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Cellular Levels

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Notes	Reference(s)
Protein	E. coli K-12 MG1655	50	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
Protein	E. coli K-12 MG1655	47	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
Protein	E. coli K-12 MG1655	52^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
ygiT
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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:3166546..3166586 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b3022 (EcoliWiki Page)	NCBI GEO profiles for mqsR
microarray	GenExpDB:b3022 (EcoliWiki Page)	Summary of data for mqsR from multiple microarray studies
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
	GFP Fusion	Intergenic region (3166486..3166794) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ09; Well:G9^[10]
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Notes

Accessions Related to mqsR Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:G7572	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2841	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3022
EcoGene	EcoGene:EG13023	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004130	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009925	Escherichia coli str. K-12 substr. MG1655
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Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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<protect> See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
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Do-It-Yourself Web Tools

Notes

Families

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Database	Accession	Notes
PFAM (EcoliWiki Page)	PFAM:PF01381
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Notes

Families

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<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database	Accession	Notes
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 Brown, BL et al. (2009) Three dimensional structure of the MqsR:MqsA complex: a novel TA pair comprised of a toxin homologous to RelE and an antitoxin with unique properties. PLoS Pathog. 5 e1000706 PubMed
↑ ^4.0 ^4.1 Yamaguchi, Y et al. (2009) MqsR, a crucial regulator for quorum sensing and biofilm formation, is a GCU-specific mRNA interferase in Escherichia coli. J. Biol. Chem. 284 28746-53 PubMed
↑ ^5.0 ^5.1 ^5.2 ^5.3 ^5.4 ^5.5 ^5.6 González Barrios, AF et al. (2006) Autoinducer 2 controls biofilm formation in Escherichia coli through a novel motility quorum-sensing regulator (MqsR, B3022). J. Bacteriol. 188 305-16 PubMed
↑ ^6.0 ^6.1 Zhang, XS et al. (2008) Escherichia coli transcription factor YncC (McbR) regulates colanic acid and biofilm formation by repressing expression of periplasmic protein YbiM (McbA). ISME J 2 615-31 PubMed
↑ ^7.0 ^7.1 ^7.2 Ren, D et al. (2004) Gene expression in Escherichia coli biofilms. Appl. Microbiol. Biotechnol. 64 515-24 PubMed
↑ ^8.0 ^8.1 Kim, Y & Wood, TK (2010) Toxins Hha and CspD and small RNA regulator Hfq are involved in persister cell formation through MqsR in Escherichia coli. Biochem. Biophys. Res. Commun. 391 209-13 PubMed
↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

mqsR:On One Page

Quickview

Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to mqsR Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Families

Notes

Links

References

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