Twoodengr: Updating New_Quickview_Table table.

ompA:Gene Product(s)

2010-01-05T16:37:49Z

Twoodengr: Table edited by Twoodengr via TableEdit

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<noinclude>{{TabsTop}}
{{Tab|Quickview|ompA}}{{Tab|Gene|ompA}}{{Tab On|Gene Product(s)|ompA}}{{Tab|Expression|ompA}}{{Tab|Evolution|ompA}}{{Tab|On One Page|ompA}}{{TabsBottom}}
{|
|-
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Function |Function]]
|{{Sub}}[[#Interactions |Interactions]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References| References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude>
==Nomenclature==

{{Product_nomenclature_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Standard name
||
OmpA
|-
!align=left {{table heading style}} |Synonyms
||
outer membrane protein A (3a;II*;G;d)<ref name='LIB:Riley_2006'/>, B0957<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Tut<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Con<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, TolG<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, OmpA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>

|-
!align=left {{table heading style}} |Product description
||
outer membrane protein 3a (II*;G;d)<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>

Outer membrane protein A; Outer membrane porin A; T-even phage receptor; weak porin; homodimer, abundant cell surface protein<ref name='LIB:EcoGene'/>

Discovered to influence biofilm formation<ref name='PMID:16317765'/>

OmpA inhibits cellulose production through the CpxRA stress response system, and this reduction in cellulose increases biofilm formation on hydrophobic surfaces<ref name='PMID:19601955'/>. Deletion of ompA increases cellulose which decreases biofilm formation on hydrophobic surfaces<ref name='PMID:19601955'/>.
|-
!align=left {{table heading style}} |EC number (for enzymes)
||

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<protect></protect>
===Notes===

==Function==
{{BacktoTop}}
<protect>
<big>'''Gene Ontology'''</big> 
{{Product_GO_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|

|
GO:0005515
|
protein binding
|
PMID:16606699
|
IPI: Inferred from Physical Interaction
|
UniProtKB:P05847
|
F
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|

|
GO:0005515
|
protein binding
|
PMID:16606699
|
IPI: Inferred from Physical Interaction
|
UniProtKB:P78285
|
F
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|

|
GO:0006810
|
transport
|
PMID:1370823
|
IDA: Inferred from Direct Assay
|

|
P
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|

|
GO:0015288
|
porin activity
|
PMID:1370823
|
IDA: Inferred from Direct Assay
|

|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0000746
|
conjugation
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0184
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0005198
|
structural molecule activity
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR002368
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0006810
|
transport
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0813
|
P
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|

|
GO:0006811
|
ion transport
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0406
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0009279
|
cell outer membrane
|
GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000498 InterPro:IPR002368 InterPro:IPR006664 InterPro:IPR006665 InterPro:IPR006690 InterPro:IPR011250
|
C
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|

|
GO:0009597
|
detection of virus
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0580
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0016020
|
membrane
|
GO_REF:0000004 GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0472 SP_KW:KW-0626
|
C
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0016021
|
integral to membrane
|
GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000498 InterPro:IPR002368 InterPro:IPR006664 InterPro:IPR006690 InterPro:IPR011250 SP_KW:KW-0812
|
C
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0019867
|
outer membrane
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0557
|
C
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|

|
GO:0046718
|
entry of virus into host cell
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0580
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0005886
|
plasma membrane
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-1003
|
C
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0006810
|
transport
|
PMID:1370823
|
IDA
|

|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing
|-
|

|
GO:0015288
|
porin activity
|
PMID:1370823
|
IDA
|

|
F
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing
|-
|

|
GO:0005515
|
protein binding
|
PMID:12509434
|
IDA: Inferred from Direct Assay
|

|
F
|

|
complete
|-
|

|
GO:0016020
|
membrane
|
PMID:12509434
|
IDA: Inferred from Direct Assay
|

|
C
|

|
complete
|-
|

|
GO:0009279
|
cell outer membrane
|
PMID:12509434
|
IDA: Inferred from Direct Assay
|

|
C
|

|
complete
|-
|

|
GO:0019867
|
outer membrane
|
PMID:12509434
|
IDA: Inferred from Direct Assay
|

|
C
|

|
complete
|-
|

|
GO:0015288
|
porin activity
|
PMID:10636850
|
IDA: Inferred from Direct Assay
|

|
F
|

|
complete
|-
|

|
GO:0016021
|
integral to membrane
|
PMID:3047121
|
IDA: Inferred from Direct Assay
|

|
C
|

|
complete
|-
|

|
GO:0006810
|
transport
|
PMID:10636850
|
IDA: Inferred from Direct Assay
|

|
P
|

|
complete
|-
|

|
GO:0046718
|
entry of virus into host cell
|
PMID:367782
|
IMP: Inferred from Mutant Phenotype
|

|
P
|

|
complete
|-
|

|
GO:0000746
|
conjugation
|
PMID:3311813
|
IMP: Inferred from Mutant Phenotype
|

|
P
|

|
complete
|-
|

|
GO:0009597
|
detection of virus
|
PMID:367782
|
IMP: Inferred from Mutant Phenotype
|

|
P
|

|
complete
|-
|

|
GO:0006811
|
ion transport
|
PMID:10636850
|
IDA: Inferred from Direct Assay
|

|
P
|

|
complete
|-
|

|
GO:0019867
|
outer membrane
|
PMID:3047120
|
IDA: Inferred from Direct Assay
|

|
C
|

|
complete
|-
|

|
GO:0009279
|
cell outer membrane
|
PMID:3047120
|
IDA: Inferred from Direct Assay
|

|
C
|

|
complete
|-
|

|
GO:0016021
|
integral to membrane
|
PMID:12509434
|
IDA: Inferred from Direct Assay
|

|
C
|

|
complete
|-
|

|
GO:0005515
|
protein binding
|
PMID:9701827
|
IDA: Inferred from Direct Assay
|

|
F
|
with TolB
|
complete

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<big>'''Interactions'''</big>

{{Product_interactions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!References!!Evidence

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</protect>
===Notes===

==Localization==

{{Product_localization_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes
|-
|
outer membrane
|

|

|
From EcoCyc<ref name='LIB:EcoCyc11.1'/>
|

|-
|
Outer Membrane
|
|PMID:9298646
|
[http://www.york.ac.uk/res/thomas/Echolocation.cfm?EB_SubLocID=EB0663 EchoLocation:ompA]
|

|

|-
|
Outer Membrane
|

|
PMID:340230, PMID:7001461, PMID:8740179, PMID:9298646, PMID:9629924.
|
[http://www.york.ac.uk/res/thomas/Echolocation.cfm?EB_SubLocID=EB0663 EchoLocation:ompA]
|

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<protect></protect>

===Notes===

==Structure and Physical Properties==
{{BacktoTop}}
<protect>
<big>'''Physical Properties'''</big>

{{Product_physical_properties_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Sequence
||
[http://biocyc.org/ECOLI/sequence-aa?object=EG10669-MONOMER at EcoCyc]
<pre>MKKTAIAIAV ALAGFATVAQ AAPKDNTWYT GAKLGWSQYH DTGFINNNGP THENQLGAGA
FGGYQVNPYV GFEMGYDWLG RMPYKGSVEN GAYKAQGVQL TAKLGYPITD DLDIYTRLGG
MVWRADTKSN VYGKNHDTGV SPVFAGGVEY AITPEIATRL EYQWTNNIGD AHTIGTRPDN
GMLSLGVSYR FGQGEAAPVV APAPAPAPEV QTKHFTLKSD VLFNFNKATL KPEGQAALDQ
LYSQLSNLDP KDGSVVVLGY TDRIGSDAYN QGLSERRAQS VVDYLISKGI PADKISARGM
GESNPVTGNT CDNVKQRAAL IDCLAPDRRV EIEVKGIKDV VTQPQA</pre>
|-
!align=left {{table heading style}} |Length
||
346
|-
!align=left {{table heading style}} |Mol. Wt
||
37.2 kDa
|-
!align=left {{table heading style}} |pI
||
6.4 (calculated)
|-
!align=left {{table heading style}} |Extinction coefficient
||
52,830 - 53,080 (calc based on 17 Y, 5 W, and 2 C residues)

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<big>'''Domains/Motifs/Modification Sites'''</big><table>
<tr align="left" valign="top">
<td>
{{Product_domains_motifs_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes
|-
|
motif
|
1-21
|
[[uniprotmanual:signal|UniProt Manual:Signal Peptides]]
|
[http://www.uniprot.org/uniprot/P0A910#section_features UniProt:P0A910]

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</td>
<td>


<motif_map/>
</td>
</tr>
</table>

<table><tr valign='top'><td>
<big>'''Structure'''</big> 

{{Product_structure_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Structures
||
<beststructure>
gene=ompA
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=recA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)

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</td><td></protect>
==== Structure figures ====

<protect>
</td><tr><table></protect>
===Notes===

==Gene Product Resources==
{{BacktoTop}}

{{Product_resources_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference

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<protect></protect>
===Notes===

==Accessions in Other Databases==
{{BacktoTop}}

{{Gene_accessions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10669-MONOMER EcoCyc:EG10669-MONOMER]
|

|-
|
[http://swissmodel.expasy.org/repository/ SwissModel] ([[SwissModel|EcoliWiki Page]])
|
[http://swissmodel.expasy.org/repository/smr.php?job=2&sptr_ac=P0A910 SwissModel:P0A910]
|

|-
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[[uniprot:P0A910|UniProt:P0A910]]
|

|-
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
|
[http://pfam.sanger.ac.uk/family?acc=PF01389 PFAM:PF01389]
|

|-
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_415477 RefSeq:NP_415477]
|

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<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


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|- {{table_heading_style}}
!|Name!!URL!!Comments

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<noinclude>
==References==
{{BacktoTop}}
{{RefHelp}}
<references />
__NOTOC__
===Categories===
{{BacktoTop}}
[[Category:Proteins]]
[[Category:GO:0009279_!_cell outer membrane]][[Category:GO:0006810_!_transport]][[Category:GO:0015288_!_porin activity]][[Category:Location:outer membrane]][[Category:Products with structures in PDB]]

ompA:Quickview

2010-01-05T16:37:46Z

Twoodengr: Updating New_Quickview_Table table.

ompA:Quickview

2010-01-05T16:37:44Z

Twoodengr: Updating New_Quickview_Table table.

hha:Gene Product(s)

2010-01-05T16:29:08Z

Twoodengr: Table edited by Twoodengr via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|hha}}{{Tab|Gene|hha}}{{Tab On|Gene Product(s)|hha}}{{Tab|Expression|hha}}{{Tab|Evolution|hha}}{{Tab|On One Page|hha}}{{TabsBottom}}
{|
|-
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Function |Function]]
|{{Sub}}[[#Interactions |Interactions]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References| References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude>
==Nomenclature==

{{Product_nomenclature_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Standard name
||
Hha
|-
!align=left {{table heading style}} |Synonyms
||
modulator of gene expression, with H-NS<ref name='LIB:Riley_2006'/>, B0460<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Hha<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
|-
!align=left {{table heading style}} |Product description
||
haemolysin expression modulating protein<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>

Modulates hemolysin expression, in complex with H-NS; stimulates transposition events; induced by AI-2 pheromone; promotes conjugation and conjugation-induced biofilms<ref name='LIB:EcoGene'/>

Hha is a small transcriptional regulator (8 kDa) that is induced in biofilms<ref name='PMID:14727089'/> and that influences biofilm formation<ref name='PMID:16317765'/>; Hha overexpression reduces biofilm formation by increasing biofilm dispersal<ref name='PMID:18545668'/>. Rather than binding to specific DNA sequences, Hha exhibits non-specific DNA binding. Hha binds in vivo to 15 genes or intergenic regions of CP4-57 and DLP12 including regions close to the prophage attachment (att) sites and that Hha activates the prophage lytic genes ''alpA'', ''rzpD'', ''appY'' and ''yfjZ'', as well as induces plaque formation and decreases cell viability<ref name='PMID:18545668'/>.
|-
!align=left {{table heading style}} |EC number (for enzymes)
||

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<protect></protect>
===Notes===

==Function==
{{BacktoTop}}
<protect>
<big>'''Gene Ontology'''</big> 
{{Product_GO_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|

|
GO:0003677
|
DNA binding
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0238
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0006350
|
transcription
|

|

|

|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20578.E46aa3140078fa&page=20578&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table] || || || || || || || ||
|}


<big>'''Interactions'''</big>

{{Product_interactions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!References!!Evidence

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20578.A46aa3142a0a7a&page=20578&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table] || || || ||
|}


</protect>
===Notes===

==Localization==

{{Product_localization_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20578.F46a7c2ad3b16e&page=20578&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || || ||
|}


<protect></protect>

===Notes===

==Structure and Physical Properties==
{{BacktoTop}}
<protect>
<big>'''Physical Properties'''</big>

{{Product_physical_properties_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Sequence
||
[http://biocyc.org/ECOLI/sequence-aa?object=EG10439-MONOMER at EcoCyc]
<pre>MSEKPLTKTD YLMRLRRCQT IDTLERVIEK NKYELSDNEL AVFYSAADHR LAELTMNKLY
DKIPSSVWKF IR</pre>
|-
!align=left {{table heading style}} |Length
||
72
|-
!align=left {{table heading style}} |Mol. Wt
||
8.628 kDa
|-
!align=left {{table heading style}} |pI
||
9.1 (calculated)
|-
!align=left {{table heading style}} |Extinction coefficient
||
11,460 - 11,585 (calc based on 4 Y, 1 W, and 1 C residues)

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20578.I46aa31445f06b&page=20578&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
|}


<big>'''Domains/Motifs/Modification Sites'''</big><table>
<tr align="left" valign="top">
<td>
{{Product_domains_motifs_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20578.Y46aa3144b8988&page=20578&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table] || || ||
|}
</td>
<td>


<motif_map/>
</td>
</tr>
</table>

<table><tr valign='top'><td>
<big>'''Structure'''</big> 

{{Product_structure_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Structures
||
<beststructure>
gene=hha
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=recA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20578.R46aa31450e455&page=20578&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
|}


</td><td></protect>
==== Structure figures ====

<protect>
</td><tr><table></protect>
===Notes===

==Gene Product Resources==
{{BacktoTop}}

{{Product_resources_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20578.X46aa3145bf981&page=20578&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
|}


<protect></protect>
===Notes===

==Accessions in Other Databases==
{{BacktoTop}}

{{Gene_accessions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10439-MONOMER EcoCyc:EG10439-MONOMER]
|

|-
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[[uniprot:P0ACE3|UniProt:P0ACE3]]
|

|-
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
|
[http://pfam.sanger.ac.uk/family?acc=PF05321 PFAM:PF05321]
|

|-
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_414993 RefSeq:NP_414993]
|

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20578.X46aa314615a24&page=20578&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|}


<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Name!!URL!!Comments

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.20578.J46a7c2b375ab2&page=20578&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|}


<noinclude>
==References==
{{BacktoTop}}
{{RefHelp}}
<references />
__NOTOC__
===Categories===
{{BacktoTop}}
[[Category:Proteins]]
[[Category:GO:0006350_!_transcription]][[Category:Products with structures in PDB]]

2010-01-05T15:56:26Z

Twoodengr: Updating New_Quickview_Table table.

mqsA:Gene Product(s)

2010-01-05T15:48:57Z

Twoodengr: Table edited by Twoodengr via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|ygiT}}{{Tab|Gene|ygiT}}{{Tab On|Gene Product(s)|ygiT}}{{Tab|Expression|ygiT}}{{Tab|Evolution|ygiT}}{{Tab|On One Page|ygiT}}{{TabsBottom}}
{|
|-
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Function |Function]]
|{{Sub}}[[#Interactions |Interactions]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References| References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude>
==Nomenclature==

{{Product_nomenclature_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Standard name
||
MqsA
|-
!align=left {{table heading style}} |Synonyms
||
predicted DNA-binding transcriptional regulator<ref name='LIB:Riley_2006'/>, B3021<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YgiT<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
|-
!align=left {{table heading style}} |Product description
||
predicted DNA-binding transcriptional regulator<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>

Antitoxin for MqsR toxin<ref name='PMID:20041169'/>
|-
!align=left {{table heading style}} |EC number (for enzymes)
||

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26434.C46aaccc377c54&page=26434&pagename={{FULLPAGENAMEE}}&type=1&template=Product_nomenclature_table edit table] ||
|}


<protect></protect>
===Notes===

==Function==
{{BacktoTop}}
<protect>
<big>'''Gene Ontology'''</big> 
{{Product_GO_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|

|
GO:0043565
|
sequence-specific DNA binding
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001387
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0006355
|
regulation of transcription, DNA-dependent
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0805
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0006350
|
transcription
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0804
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0003677
|
DNA binding
|
GO_REF:0000002 GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR010982 SP_KW:KW-0238
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26434.D46aaccc48530c&page=26434&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table] || || || || || || || ||
|}


<big>'''Interactions'''</big>

{{Product_interactions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!References!!Evidence

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26434.W46aaccc51716a&page=26434&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table] || || || ||
|}


</protect>
===Notes===

==Localization==

{{Product_localization_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26434.I46a8616b241b8&page=26434&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || || ||
|}


<protect></protect>

===Notes===

==Structure and Physical Properties==
{{BacktoTop}}
<protect>
<big>'''Physical Properties'''</big>

{{Product_physical_properties_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Sequence
||
[http://biocyc.org/ECOLI/sequence-aa?object=G7571-MONOMER at EcoCyc]
<pre>MKCPVCHQGE MVSGIKDIPY TFRGRKTVLK GIHGLYCVHC EESIMNKEES DAFMAQVKAF
RASVNAETVA PEFIVKVRKK LSLTQKEASE IFGGGVNAFS RYEKGNAQPH PSTIKLLRVL
DKHPELLNEI R</pre>
|-
!align=left {{table heading style}} |Length
||
131
|-
!align=left {{table heading style}} |Mol. Wt
||
14.702 kDa
|-
!align=left {{table heading style}} |pI
||
9.0 (calculated)
|-
!align=left {{table heading style}} |Extinction coefficient
||
4,470 - 4,970 (calc based on 3 Y, W, and 4 C residues)

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26434.D46aaccc703064&page=26434&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
|}


<big>'''Domains/Motifs/Modification Sites'''</big><table>
<tr align="left" valign="top">
<td>
{{Product_domains_motifs_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26434.U46aaccc773b78&page=26434&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table] || || ||
|}
</td>
<td>


<motif_map/>
</td>
</tr>
</table>

<table><tr valign='top'><td>
<big>'''Structure'''</big> 

{{Product_structure_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Structures
||
<beststructure>
gene=ygiT
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=recA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26434.F46a8616cb91ac&page=26434&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
|}


</td><td></protect>
==== Structure figures ====

<protect>
</td><tr><table></protect>
===Notes===

==Gene Product Resources==
{{BacktoTop}}

{{Product_resources_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26434.D46aaccc83f72a&page=26434&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
|}


<protect></protect>
===Notes===

==Accessions in Other Databases==
{{BacktoTop}}

{{Gene_accessions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7571-MONOMER EcoCyc:G7571-MONOMER]
|

|-
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[[uniprot:Q46864|UniProt:Q46864]]
|

|-
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
|
[http://pfam.sanger.ac.uk/family?acc=PF01381 PFAM:PF01381]
|

|-
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_417493 RefSeq:NP_417493]
|

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26434.Z46aaccc89f066&page=26434&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|}


<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Name!!URL!!Comments

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26434.W46a8616f73dee&page=26434&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|}


<noinclude>
==References==
{{BacktoTop}}
{{RefHelp}}
<references />
__NOTOC__
===Categories===
{{BacktoTop}}
[[Category:Proteins]]

mqsA:Quickview

2010-01-05T15:48:56Z

Twoodengr: Updating New_Quickview_Table table.

mqsA:Gene Product(s)

2010-01-05T15:48:28Z

2010-01-05T15:23:47Z

Twoodengr: /* Significance {{HelpIcon|Help:Literature}} */

{{RightTOC}}
<protect>
 '''Brown, BL, Grigoriu, S, Kim, Y, Arruda, JM, Davenport, A, Wood, TK, Peti, W and Page, R''' (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

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || <protect>One mechanism by which bacteria survive environmental stress is through the formation of bacterial persisters, a sub-population of genetically identical quiescent cells that exhibit multidrug tolerance and are highly enriched in bacterial toxins. Recently, the Escherichia coli gene mqsR (b3022) was identified as the gene most highly upregulated in persisters. Here, we report multiple individual and complex three-dimensional structures of MqsR and its antitoxin MqsA (B3021), which reveal that MqsR:MqsA form a novel toxin:antitoxin (TA) pair. MqsR adopts an alpha/beta fold that is homologous with the RelE/YoeB family of bacterial ribonuclease toxins. MqsA is an elongated dimer that neutralizes MqsR toxicity. As expected for a TA pair, MqsA binds its own promoter. Unexpectedly, it also binds the promoters of genes important for E. coli physiology (e.g., mcbR, spy). Unlike canonical antitoxins, MqsA is also structured throughout its entire sequence, binds zinc and coordinates DNA via its C- and not N-terminal domain. These studies reveal that TA systems, especially the antitoxins, are significantly more diverse than previously recognized and provide new insights into the role of toxins in maintaining the persister state.</protect>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=20041169 PubMed] Online version:[http://dx.doi.org/10.1371/journal.ppat.1000706 10.1371/journal.ppat.1000706]
|}
</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}
This work is significant because it shows for the first time the three-dimensional structures of toxin MqsR and antitoxin MqsA; this structural information shows that toxin MqsR is a ribonuclease, and that it is related to mRNA interferase RelE<ref name='PMID:20041169'/>. In addition, it shows for the first time that an antitoxin, MqsA, is able to bind more than its own promoter<ref name='PMID:20041169'/>; this implies that antitoxins may regulate more than the genes that encode them. MqsA binds DNA via its helix-turn-helix in its C-terminal domain<ref name='PMID:20041169'/>. Unlike most TA pairs including RelE/RelB, YoeB/YefM and MazF/MazE, the MqsR toxin gene precedes the antitoxin gene in the bicistronic operon. Furthermore, the MqsR/MqsA TA pair is unique in that (i) the antitoxin is larger than the toxin, (ii) both toxin and antitoxin are basic (typically the toxin is basic while the antitoxin is acidic), (iii) the mqsRA sequences are not homologous to any member of a recognized TA system, (iv) the antitoxin binds the toxin at its amino terminus and requires a metal, zinc, for structural stability, (v) the antitoxin is structured throughout its entire sequence, and (vi) the antitoxin binds more than its own promoter (e.g., ''mqsRA'', ''mcbR'', and ''spy'') via its C-terminal domain. Also, MqsR cleaves mRNA at GCU sites <ref name='PMID:19690171'/>.

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==
<protect>

{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.170167.I4b425dfb42350&page=170167&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}
</protect>

==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==See also==

==References==
{{RefHelp}}
<references/>

PMID:18309357

2010-01-05T15:15:36Z

Twoodengr: /* Significance {{HelpIcon|Help:Literature}} */

{{RightTOC}}
<protect>
 '''Zhang, XS, García-Contreras, R and Wood, TK''' (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

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || <protect>Quorum-sensing signal autoinducer 2 (AI-2) stimulates Escherichia coli biofilm formation through the motility regulator MqsR that induces expression of the putative transcription factor encoded by yncC. Here, we show that YncC increases biofilm formation by repressing overproduction of the exopolysaccharide identified as colanic acid (corroborated by decreasing mucoidy and increased sensitivity to bacteriophage P1 infection). Differential gene expression and gel shift assays demonstrated that YncC is a repressor of the predicted periplasmic protein-encoding gene, ybiM, which was corroborated by the isogenic yncC ybiM double mutation that repressed the yncC phenotypes (biofilm formation, colanic acid overproduction, mucoidy and bacteriophage resistance). Through nickel-enrichment DNA microarrays and additional gel shift assays, we found that the putative transcription factor B3023 (directly upstream of mqsR) binds the yncC promoter. Overexpressing MqsR, AI-2 import regulators LsrR/LsrK and AI-2 exporter TqsA induced yncC transcription, whereas the AI-2 synthase LuxS and B3023 repressed yncC. MqsR has a toxic effect on E. coli bacterial growth, which is partially reduced by the b3023 mutation. Therefore, AI-2 quorum-sensing control of biofilm formation is mediated through regulator MqsR that induces expression of the transcription factor YncC. YncC inhibits the expression of periplasmic YbiM, which prevents overproduction of colanic acid (excess colanic acid causes mucoidy) and prevents YbiM from inhibiting biofilm formation.</protect>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=18309357 PubMed] Online version:[http://dx.doi.org/10.1038/ismej.2008.24 10.1038/ismej.2008.24]
|}
</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}
Deletion of toxin-encoding ''mqsR'' (and probably inactivation of the gene that encodes antitoxin MqsA due to a polar effect) represses ''mcbR''; hence, McbR is linked to quorum sensing via AI-2 and MqsR<ref name='PMID:16352847'/>. This manuscript is significant in that it shows the previously-uncharacterized regulator, McbR (YncC), inhibits McbA (YbiM) and thereby reduces production of colanic acid<ref name='PMID:18309357'/>. Also, this is the first manuscript to show that MqsR is a toxin<ref name='PMID:18309357'/>.

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

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<protect>

{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.170148.E4b3ed77fa2730&page=170148&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}
</protect>

<protect>

{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Accessions!!SMD Category!!SMD Subcategory!!SMD status

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.170148.P4b3ed787b8f5b&page=170148&pagename={{FULLPAGENAMEE}}&type=0&template=Array_paper_table edit table] || || ||
|}
[[Category:Expression_data]]</protect>

==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==See also==

==References==
{{RefHelp}}
<references/>

PMID:19909729

2010-01-05T15:13:13Z

Twoodengr: /* Significance {{HelpIcon|Help:Literature}} */

{{RightTOC}}
<protect>
 '''Kim, Y and Wood, TK''' (2009) Toxins Hha and CspD and small RNA regulator Hfq are involved in persister cell formation through MqsR in Escherichia coli.''Biochem. Biophys. Res. Commun.'' 

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || <protect>Persisters are cells which evade stresses like antibiotics and which are characterized by reduced metabolism and a lack of genetic alterations required to achieve this state. We showed previously that MqsR and MqsA of Escherichia coli are a toxin-antitoxin pair that influence cell physiology (e.g., biofilm formation and motility) via RNase activity as well as through regulation of toxin CspD. Here, we show that deletion of the mqsRA locus decreases persister cell formation and, consistent with this result, over production of MqsR increases persister cell formation. Furthermore, toxins Hha, CspD, and HokA increase persister cell formation. In addition, by overproducing MqsR in a series of isogenic mutants, we show that Hha and CspD are necessary for persister cell formation via MqsR overexpression. Surprisingly, Hfq, a small RNA chaperone, decreases persistence. A whole-transcriptome study shows that Hfq induces transport-related genes (opp genes and dppA), outer membrane protein-related genes (ybfM and ybfN), toxins (hha), and proteases (clpX, clpP, and lon). Taken together, these results indicate that toxins CspD, Hha, and HokA influence persister cell formation via MqsR and that Hfq plays an important role in the regulation of persister cell formation via regulation of transport or outer membrane proteins OppA and YbfM.</protect>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=19909729 PubMed] Online version:[http://dx.doi.org/10.1016/j.bbrc.2009.11.033 10.1016/j.bbrc.2009.11.033]
|}
</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}
The mRNA interferase MqsR of ''E. coli''<ref name='PMID:20041169'/> is significant in that it is only the second toxin that, upon deleting the gene that encodes it, causes persister cell formation to decrease<ref name='PMID:19909729'/>. In addition, the manuscript links for the first time ''E. coli'' proteins Hha, CspD, HokA, Hfq, YbfM, and OppA to persistence<ref name='PMID:19909729'/>. The work also provides whole transcriptome data for the influence of Hhq on metabolism<ref name='PMID:19909729'/>.

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==
<protect>

{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.166659.Y4b16faf2e5e82&page=166659&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}
</protect>

<protect>

{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Accessions!!SMD Category!!SMD Subcategory!!SMD status

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.166659.T4b3ed7e1cfcad&page=166659&pagename={{FULLPAGENAMEE}}&type=0&template=Array_paper_table edit table] || || ||
|}
[[Category:Expression_data]]</protect>

==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==See also==

==References==
{{RefHelp}}
<references/>

PMID:14727089

2010-01-04T22:43:23Z

Twoodengr: /* Significance {{HelpIcon|Help:Literature}} */

{{RightTOC}}

 '''Ren, D, Bedzyk, LA, Thomas, SM, Ye, RW and Wood, TK''' (2004) Gene expression in Escherichia coli biofilms.''Appl. Microbiol. Biotechnol.'' '''64''':515-24

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || DNA microarrays were used to study the gene expression profile of Escherichia coli JM109 and K12 biofilms. Both glass wool in shake flasks and mild steel 1010 plates in continuous reactors were used to create the biofilms. For the biofilms grown on glass wool, 22 genes were induced significantly (p< or =0.05) compared to suspension cells, including several genes for the stress response ( hslS, hslT, hha, and soxS), type I fimbriae ( fimG), metabolism ( metK), and 11 genes of unknown function ( ybaJ, ychM, yefM, ygfA, b1060, b1112, b2377, b3022, b1373, b1601, and b0836). The DNA microarray results were corroborated with RNA dot blotting. For the biofilm grown on mild steel plates, the DNA microarray data showed that, at a specific growth rate of 0.05/h, the mature biofilm after 5 days in the continuous reactors did not exhibit differential gene expression compared to suspension cells although genes were induced at 0.03/h. The present study suggests that biofilm gene expression is strongly associated with environmental conditions and that stress genes are involved in E. coli JM109 biofilm formation.
</noinclude>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=14727089 PubMed]
|}

==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}
This manuscript is significant since it identifies for the first time that a toxin is related to biofilm formation<ref name='PMID:14727089'/>; here it is shown that previously uncharacterized MqsR<ref name='PMID:20041169'/> of the MqsR/MqA toxin/antitoxin pair is induced during biofilm formation<ref name='PMID:14727089'/> as well as shows that toxin Hha and previously uncharacterized antitoxin TomB (YbaJ) <ref name='PMID:18545668'/> are induced during biofilm formation.

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==


{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.0.D47a93f581e405&page=0&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}


==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==References==
{{RefHelp}}
<references/>

PMID:14727089

2010-01-04T22:42:02Z

Twoodengr: /* Significance {{HelpIcon|Help:Literature}} */

{{RightTOC}}

 '''Ren, D, Bedzyk, LA, Thomas, SM, Ye, RW and Wood, TK''' (2004) Gene expression in Escherichia coli biofilms.''Appl. Microbiol. Biotechnol.'' '''64''':515-24

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || DNA microarrays were used to study the gene expression profile of Escherichia coli JM109 and K12 biofilms. Both glass wool in shake flasks and mild steel 1010 plates in continuous reactors were used to create the biofilms. For the biofilms grown on glass wool, 22 genes were induced significantly (p< or =0.05) compared to suspension cells, including several genes for the stress response ( hslS, hslT, hha, and soxS), type I fimbriae ( fimG), metabolism ( metK), and 11 genes of unknown function ( ybaJ, ychM, yefM, ygfA, b1060, b1112, b2377, b3022, b1373, b1601, and b0836). The DNA microarray results were corroborated with RNA dot blotting. For the biofilm grown on mild steel plates, the DNA microarray data showed that, at a specific growth rate of 0.05/h, the mature biofilm after 5 days in the continuous reactors did not exhibit differential gene expression compared to suspension cells although genes were induced at 0.03/h. The present study suggests that biofilm gene expression is strongly associated with environmental conditions and that stress genes are involved in E. coli JM109 biofilm formation.
</noinclude>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=14727089 PubMed]
|}

==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}
This manuscript is significant since it identifies for the first time that a toxin is related to biofilm formation<ref name='PMID:14727089'/>; here it is shown that previously uncharacterized MqsR<ref name='PMID:20041169'/> of the MqsR/MqA toxin/antitoxin pair is induced during biofilm formation<ref name='PMID:14727089'/> as well as shows that toxin Hha and antitoxin TomB (YbaJ) <ref name='PMID:18545668'/> are induced during biofilm formation.

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==


{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.0.D47a93f581e405&page=0&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}


==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==References==
{{RefHelp}}
<references/>

PMID:14727089

2010-01-04T22:38:31Z

Twoodengr: /* Significance {{HelpIcon|Help:Literature}} */

{{RightTOC}}

 '''Ren, D, Bedzyk, LA, Thomas, SM, Ye, RW and Wood, TK''' (2004) Gene expression in Escherichia coli biofilms.''Appl. Microbiol. Biotechnol.'' '''64''':515-24

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || DNA microarrays were used to study the gene expression profile of Escherichia coli JM109 and K12 biofilms. Both glass wool in shake flasks and mild steel 1010 plates in continuous reactors were used to create the biofilms. For the biofilms grown on glass wool, 22 genes were induced significantly (p< or =0.05) compared to suspension cells, including several genes for the stress response ( hslS, hslT, hha, and soxS), type I fimbriae ( fimG), metabolism ( metK), and 11 genes of unknown function ( ybaJ, ychM, yefM, ygfA, b1060, b1112, b2377, b3022, b1373, b1601, and b0836). The DNA microarray results were corroborated with RNA dot blotting. For the biofilm grown on mild steel plates, the DNA microarray data showed that, at a specific growth rate of 0.05/h, the mature biofilm after 5 days in the continuous reactors did not exhibit differential gene expression compared to suspension cells although genes were induced at 0.03/h. The present study suggests that biofilm gene expression is strongly associated with environmental conditions and that stress genes are involved in E. coli JM109 biofilm formation.
</noinclude>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=14727089 PubMed]
|}

==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}
This manuscript is significant since it identifies for the first time that a toxin is related to biofilm formation<ref name='PMID:14727089'/>; here it is shown that previously uncharacterized MqsR<ref name='PMID:20041169'/> of the MqsR/MqA toxin/antitoxin pair is induced during biofilm formation<ref name='PMID:14727089'/>.

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==


{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.0.D47a93f581e405&page=0&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}


==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==References==
{{RefHelp}}
<references/>

PMID:20041169

2010-01-04T22:33:55Z

Twoodengr: /* Significance {{HelpIcon|Help:Literature}} */

{{RightTOC}}
<protect>
 '''Brown, BL, Grigoriu, S, Kim, Y, Arruda, JM, Davenport, A, Wood, TK, Peti, W and Page, R''' (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

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || <protect>One mechanism by which bacteria survive environmental stress is through the formation of bacterial persisters, a sub-population of genetically identical quiescent cells that exhibit multidrug tolerance and are highly enriched in bacterial toxins. Recently, the Escherichia coli gene mqsR (b3022) was identified as the gene most highly upregulated in persisters. Here, we report multiple individual and complex three-dimensional structures of MqsR and its antitoxin MqsA (B3021), which reveal that MqsR:MqsA form a novel toxin:antitoxin (TA) pair. MqsR adopts an alpha/beta fold that is homologous with the RelE/YoeB family of bacterial ribonuclease toxins. MqsA is an elongated dimer that neutralizes MqsR toxicity. As expected for a TA pair, MqsA binds its own promoter. Unexpectedly, it also binds the promoters of genes important for E. coli physiology (e.g., mcbR, spy). Unlike canonical antitoxins, MqsA is also structured throughout its entire sequence, binds zinc and coordinates DNA via its C- and not N-terminal domain. These studies reveal that TA systems, especially the antitoxins, are significantly more diverse than previously recognized and provide new insights into the role of toxins in maintaining the persister state.</protect>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=20041169 PubMed] Online version:[http://dx.doi.org/10.1371/journal.ppat.1000706 10.1371/journal.ppat.1000706]
|}
</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}
This work is significant because it shows for the first time that toxin MqsR is a ribonuclease, and that it is related to mRNA interferase RelE<ref name='PMID:20041169'/>. In addition, it shows for the first time that an antitoxin, MqsA, is able to bind more than its own promoter<ref name='PMID:20041169'/>; this implies that antitoxins may regulate more than the genes that encode them.

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==
<protect>

{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.170167.I4b425dfb42350&page=170167&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}
</protect>

==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==See also==

==References==
{{RefHelp}}
<references/>

PMID:16352847

2010-01-04T22:22:11Z

Twoodengr: /* Significance {{HelpIcon|Help:Literature}} */

{{RightTOC}}

 '''González Barrios, AF, Zuo, R, Hashimoto, Y, Yang, L, Bentley, WE and Wood, TK''' (2006) Autoinducer 2 controls biofilm formation in Escherichia coli through a novel motility quorum-sensing regulator (MqsR, B3022).''J. Bacteriol.'' '''188''':305-16

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || The cross-species bacterial communication signal autoinducer 2 (AI-2), produced by the purified enzymes Pfs (nucleosidase) and LuxS (terminal synthase) from S-adenosylhomocysteine, directly increased Escherichia coli biofilm mass 30-fold. Continuous-flow cells coupled with confocal microscopy corroborated these results by showing the addition of AI-2 significantly increased both biofilm mass and thickness and reduced the interstitial space between microcolonies. As expected, the addition of AI-2 to cells which lack the ability to transport AI-2 (lsr null mutant) failed to stimulate biofilm formation. Since the addition of AI-2 increased cell motility through enhanced transcription of five motility genes, we propose that AI-2 stimulates biofilm formation and alters its architecture by stimulating flagellar motion and motility. It was also found that the uncharacterized protein B3022 regulates this AI-2-mediated motility and biofilm phenotype through the two-component motility regulatory system QseBC. Deletion of b3022 abolished motility, which was restored by expressing b3022 in trans. Deletion of b3022 also decreased biofilm formation significantly, relative to the wild-type strain in three media (46 to 74%) in 96-well plates, as well as decreased biomass (8-fold) and substratum coverage (19-fold) in continuous-flow cells with minimal medium (growth rate not altered and biofilm restored by expressing b3022 in trans). Deleting b3022 changed the wild-type biofilm architecture from a thick (54-mum) complex structure to one that contained only a few microcolonies. B3022 positively regulates expression of qseBC, flhD, fliA, and motA, since deleting b3022 decreased their transcription by 61-, 25-, 2.4-, and 18-fold, respectively. Transcriptome analysis also revealed that B3022 induces crl (26-fold) and flhCD (8- to 27-fold). Adding AI-2 (6.4 muM) increased biofilm formation of wild-type K-12 MG1655 but not that of the isogenic b3022, qseBC, fliA, and motA mutants. Adding AI-2 also increased motA transcription for the wild-type strain but did not stimulate motA transcription for the b3022 and qseB mutants. Together, these results indicate AI-2 induces biofilm formation in E. coli through B3022, which then regulates QseBC and motility; hence, b3022 has been renamed the motility quorum-sensing regulator gene (the mqsR gene).
</noinclude>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=16352847 PubMed]
|}

==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}
The manuscript is significant since it is the first paper to show directly that quorum sensing signal AI-2 increases the biofilm formation of any strain<ref name='PMID:16352847'/>; previous reports relied on deletions or conditioned medium whereas this manuscript used enzymatically synthesized AI-2. In addition, this manuscript shows that mRNA interferase MqsR<ref name='PMID:20041169'/> is a global regulator<ref name='PMID:16352847'/>. This manuscript also links AI-2 to motility via QseBC.

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

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{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.0.W47a90ccc0e129&page=0&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}


==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==References==
{{RefHelp}}
<references/>

mqsR:Quickview

2010-01-04T22:12:11Z

Twoodengr: /* Notes */

mqsR:Gene Product(s)

2010-01-04T22:07:41Z

Twoodengr: Table edited by Twoodengr via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|mqsR}}{{Tab|Gene|mqsR}}{{Tab On|Gene Product(s)|mqsR}}{{Tab|Expression|mqsR}}{{Tab|Evolution|mqsR}}{{Tab|On One Page|mqsR}}{{TabsBottom}}
{|
|-
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Function |Function]]
|{{Sub}}[[#Interactions |Interactions]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References| References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude>
==Nomenclature==

{{Product_nomenclature_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Standard name
||
MqsR<ref name='PMID:16352847'/>

|-
!align=left {{table heading style}} |Synonyms
||
B3022<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YgiU<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, MqsR<ref name='PMID:16352847'/>
|-
!align=left {{table heading style}} |Product description
||
RNase interferase<ref name='PMID:20041169'/><ref name='PMID:19690171'/>
Motility quorum-sensing regulator<ref name='PMID:16352847'/>
Toxin mitigted by MqsA (YgiT) antitoxin<ref name='PMID:20041169'/><ref name='PMID:18309357'/>; works through QseBC and AI-2<ref name='PMID:16352847'/>
First identified as induced in biofilms<ref name='PMID:14727089'/>
|-
!align=left {{table heading style}} |EC number (for enzymes)
||

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|}


<protect></protect>
===Notes===

==Function==
{{BacktoTop}}
<protect>
<big>'''Gene Ontology'''</big> 
{{Product_GO_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|

|
GO:0009991
|
response to extracellular stimulus
|

|

|

|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing
|-
|

|
GO:0009372
|
quorum sensing
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0673
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0009605
|
response to external stimulus
|

|

|

|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.S46aacccd44d9e&page=26436&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table] || || || || || || || ||
|}


<big>'''Interactions'''</big>

{{Product_interactions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!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 

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.M46aaccd5673f6&page=26436&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table] || || || ||
|}


</protect>
===Notes===

==Localization==

{{Product_localization_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.G46a861791c28b&page=26436&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || || ||
|}


<protect></protect>

===Notes===

==Structure and Physical Properties==
{{BacktoTop}}
<protect>
<big>'''Physical Properties'''</big>

{{Product_physical_properties_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Sequence
||
[http://biocyc.org/ECOLI/sequence-aa?object=G7572-MONOMER at EcoCyc]
<pre>MEKRTPHTRL SQVKKLVNAG QVRTTRSALL NADELGLDFD GMCNVIIGLS ESDFYKSMTT
YSDHTIWQDV YRPRLVTGQV YLKITVIHDV LIVSFKEK</pre>
|-
!align=left {{table heading style}} |Length
||
98
|-
!align=left {{table heading style}} |Mol. Wt
||
11.231 kDa
|-
!align=left {{table heading style}} |pI
||
9.1 (calculated)
|-
!align=left {{table heading style}} |Extinction coefficient
||
11,460 - 11,585 (calc based on 4 Y, 1 W, and 1 C residues)

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.Z46aaccd753d10&page=26436&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
|}


<big>'''Domains/Motifs/Modification Sites'''</big><table>
<tr align="left" valign="top">
<td>
{{Product_domains_motifs_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.J46aaccd7c4a4d&page=26436&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table] || || ||
|}
</td>
<td>


<motif_map/>
</td>
</tr>
</table>

<table><tr valign='top'><td>
<big>'''Structure'''</big> 

{{Product_structure_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Structures
||
<beststructure>
gene=mqsR
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=recA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.V46a8617aae020&page=26436&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
|}


</td><td></protect>
==== Structure figures ====

<protect>
</td><tr><table></protect>
===Notes===

==Gene Product Resources==
{{BacktoTop}}

{{Product_resources_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.Q46aaccd890a30&page=26436&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
|}


<protect></protect>
===Notes===

==Accessions in Other Databases==
{{BacktoTop}}

{{Gene_accessions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7572-MONOMER EcoCyc:G7572-MONOMER]
|

|-
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[[uniprot:Q46865|UniProt:Q46865]]
|

|-
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_417494 RefSeq:NP_417494]
|

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.I46aaccd8f08a0&page=26436&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|}


<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Name!!URL!!Comments

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.N46a8617cc8a65&page=26436&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|}


<noinclude>
==References==
{{BacktoTop}}
{{RefHelp}}
<references />
__NOTOC__
===Categories===
{{BacktoTop}}
[[Category:GO:0009991_!_response to extracellular stimulus]][[Category:GO:0009605_!_response to external stimulus]]
[[Category:Proteins]]

mqsR:Quickview

2010-01-04T22:07:39Z

Twoodengr: Updating New_Quickview_Table table.

mqsR:Gene Product(s)

2010-01-04T22:05:47Z

Twoodengr: Table edited by Twoodengr via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|mqsR}}{{Tab|Gene|mqsR}}{{Tab On|Gene Product(s)|mqsR}}{{Tab|Expression|mqsR}}{{Tab|Evolution|mqsR}}{{Tab|On One Page|mqsR}}{{TabsBottom}}
{|
|-
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Function |Function]]
|{{Sub}}[[#Interactions |Interactions]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References| References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude>
==Nomenclature==

{{Product_nomenclature_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Standard name
||
MqsR<ref name='PMID:16352847'/>

|-
!align=left {{table heading style}} |Synonyms
||
B3022<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YgiU<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, MqsR<ref name='PMID:16352847'/>
|-
!align=left {{table heading style}} |Product description
||
RNase interferase<ref name='PMID:20041169'/><ref name='PMID:19690171'/>
Motility quorum-sensing regulator<ref name='PMID:16352847'/>
Toxin mitigted by MqsA (YgiT) antitoxin<ref name='PMID:20041169'/><ref name='PMID:18309357'/>18309357; works through QseBC and AI-2<ref name='PMID:16352847'/>
First identified as induced in biofilms<ref name='PMID:14727089'/>
|-
!align=left {{table heading style}} |EC number (for enzymes)
||

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.E46aacccc32cd4&page=26436&pagename={{FULLPAGENAMEE}}&type=1&template=Product_nomenclature_table edit table] ||
|}


<protect></protect>
===Notes===

==Function==
{{BacktoTop}}
<protect>
<big>'''Gene Ontology'''</big> 
{{Product_GO_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|

|
GO:0009991
|
response to extracellular stimulus
|

|

|

|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing
|-
|

|
GO:0009372
|
quorum sensing
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0673
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|

|
GO:0009605
|
response to external stimulus
|

|

|

|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.S46aacccd44d9e&page=26436&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table] || || || || || || || ||
|}


<big>'''Interactions'''</big>

{{Product_interactions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!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 

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.M46aaccd5673f6&page=26436&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table] || || || ||
|}


</protect>
===Notes===

==Localization==

{{Product_localization_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.G46a861791c28b&page=26436&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || || ||
|}


<protect></protect>

===Notes===

==Structure and Physical Properties==
{{BacktoTop}}
<protect>
<big>'''Physical Properties'''</big>

{{Product_physical_properties_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Sequence
||
[http://biocyc.org/ECOLI/sequence-aa?object=G7572-MONOMER at EcoCyc]
<pre>MEKRTPHTRL SQVKKLVNAG QVRTTRSALL NADELGLDFD GMCNVIIGLS ESDFYKSMTT
YSDHTIWQDV YRPRLVTGQV YLKITVIHDV LIVSFKEK</pre>
|-
!align=left {{table heading style}} |Length
||
98
|-
!align=left {{table heading style}} |Mol. Wt
||
11.231 kDa
|-
!align=left {{table heading style}} |pI
||
9.1 (calculated)
|-
!align=left {{table heading style}} |Extinction coefficient
||
11,460 - 11,585 (calc based on 4 Y, 1 W, and 1 C residues)

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.Z46aaccd753d10&page=26436&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
|}


<big>'''Domains/Motifs/Modification Sites'''</big><table>
<tr align="left" valign="top">
<td>
{{Product_domains_motifs_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.J46aaccd7c4a4d&page=26436&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table] || || ||
|}
</td>
<td>


<motif_map/>
</td>
</tr>
</table>

<table><tr valign='top'><td>
<big>'''Structure'''</big> 

{{Product_structure_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"

|-
!align=left {{table heading style}} |Structures
||
<beststructure>
gene=mqsR
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=recA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.V46a8617aae020&page=26436&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
|}


</td><td></protect>
==== Structure figures ====

<protect>
</td><tr><table></protect>
===Notes===

==Gene Product Resources==
{{BacktoTop}}

{{Product_resources_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.Q46aaccd890a30&page=26436&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
|}


<protect></protect>
===Notes===

==Accessions in Other Databases==
{{BacktoTop}}

{{Gene_accessions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7572-MONOMER EcoCyc:G7572-MONOMER]
|

|-
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[[uniprot:Q46865|UniProt:Q46865]]
|

|-
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_417494 RefSeq:NP_417494]
|

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.I46aaccd8f08a0&page=26436&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|}


<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table_heading_style}}
!|Name!!URL!!Comments

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26436.N46a8617cc8a65&page=26436&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|}


<noinclude>
==References==
{{BacktoTop}}
{{RefHelp}}
<references />
__NOTOC__
===Categories===
{{BacktoTop}}
[[Category:GO:0009991_!_response to extracellular stimulus]][[Category:GO:0009605_!_response to external stimulus]]
[[Category:Proteins]]

mqsR:Quickview

2010-01-04T22:05:45Z

Twoodengr: Updating New_Quickview_Table table.

PMID:18309357

2010-01-04T21:58:42Z

Twoodengr: /* Significance {{HelpIcon|Help:Literature}} */

{{RightTOC}}
<protect>
 '''Zhang, XS, García-Contreras, R and Wood, TK''' (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

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || <protect>Quorum-sensing signal autoinducer 2 (AI-2) stimulates Escherichia coli biofilm formation through the motility regulator MqsR that induces expression of the putative transcription factor encoded by yncC. Here, we show that YncC increases biofilm formation by repressing overproduction of the exopolysaccharide identified as colanic acid (corroborated by decreasing mucoidy and increased sensitivity to bacteriophage P1 infection). Differential gene expression and gel shift assays demonstrated that YncC is a repressor of the predicted periplasmic protein-encoding gene, ybiM, which was corroborated by the isogenic yncC ybiM double mutation that repressed the yncC phenotypes (biofilm formation, colanic acid overproduction, mucoidy and bacteriophage resistance). Through nickel-enrichment DNA microarrays and additional gel shift assays, we found that the putative transcription factor B3023 (directly upstream of mqsR) binds the yncC promoter. Overexpressing MqsR, AI-2 import regulators LsrR/LsrK and AI-2 exporter TqsA induced yncC transcription, whereas the AI-2 synthase LuxS and B3023 repressed yncC. MqsR has a toxic effect on E. coli bacterial growth, which is partially reduced by the b3023 mutation. Therefore, AI-2 quorum-sensing control of biofilm formation is mediated through regulator MqsR that induces expression of the transcription factor YncC. YncC inhibits the expression of periplasmic YbiM, which prevents overproduction of colanic acid (excess colanic acid causes mucoidy) and prevents YbiM from inhibiting biofilm formation.</protect>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=18309357 PubMed] Online version:[http://dx.doi.org/10.1038/ismej.2008.24 10.1038/ismej.2008.24]
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</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}
Deletion of toxin-encoding mqsR (and probably inactivation of the gene that encodes antitoxin MqsA due to a polar effect) represses mcbR; hence, McbR is linked to quorum sensing via AI-2 and MqsR<ref name='PMID:16352847'/>. This manuscript is significant in that it shows the previously-uncharacterized regulator, McbR (YncC), inhibits McbA (YbiM) and thereby reduces production of colanic acid<ref name='PMID:18309357'/>. Also, this is the first manuscript to show that MqsR is a toxin<ref name='PMID:18309357'/>.

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==
<protect>

{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
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[[Category:Expression_data]]</protect>

==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==See also==

==References==
{{RefHelp}}
<references/>

PMID:19909729

2010-01-04T21:40:50Z

Twoodengr: /* Significance {{HelpIcon|Help:Literature}} */

{{RightTOC}}
<protect>
 '''Kim, Y and Wood, TK''' (2009) Toxins Hha and CspD and small RNA regulator Hfq are involved in persister cell formation through MqsR in Escherichia coli.''Biochem. Biophys. Res. Commun.'' 

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|{{TableHeadingColor}} |'''Abstract''' || <protect>Persisters are cells which evade stresses like antibiotics and which are characterized by reduced metabolism and a lack of genetic alterations required to achieve this state. We showed previously that MqsR and MqsA of Escherichia coli are a toxin-antitoxin pair that influence cell physiology (e.g., biofilm formation and motility) via RNase activity as well as through regulation of toxin CspD. Here, we show that deletion of the mqsRA locus decreases persister cell formation and, consistent with this result, over production of MqsR increases persister cell formation. Furthermore, toxins Hha, CspD, and HokA increase persister cell formation. In addition, by overproducing MqsR in a series of isogenic mutants, we show that Hha and CspD are necessary for persister cell formation via MqsR overexpression. Surprisingly, Hfq, a small RNA chaperone, decreases persistence. A whole-transcriptome study shows that Hfq induces transport-related genes (opp genes and dppA), outer membrane protein-related genes (ybfM and ybfN), toxins (hha), and proteases (clpX, clpP, and lon). Taken together, these results indicate that toxins CspD, Hha, and HokA influence persister cell formation via MqsR and that Hfq plays an important role in the regulation of persister cell formation via regulation of transport or outer membrane proteins OppA and YbfM.</protect>
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|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=19909729 PubMed] Online version:[http://dx.doi.org/10.1016/j.bbrc.2009.11.033 10.1016/j.bbrc.2009.11.033]
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</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}
The mRNA interferase MqsR of E. coli<ref name='PMID:20041169'/> is significant in that it is only the second toxin that, upon deleting the gene that encodes it, causes persister cell formation to decrease<ref name='PMID:19909729'/>. In addition, the manuscript links for the first time E. coli proteins Hha, CspD, HokA, Hfq, YbfM, and OppA to persistence<ref name='PMID:19909729'/>. The work also provides whole transcriptome data for the influence of Hhq on metabolism<ref name='PMID:19909729'/>.

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==
<protect>

{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
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[[Category:Expression_data]]</protect>

==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

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==References==
{{RefHelp}}
<references/>

PMID:19690171

2010-01-04T21:31:52Z

Twoodengr: Fill PMID: Page!

{{RightTOC}}
<protect>
 '''Yamaguchi, Y, Park, JH and Inouye, M''' (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

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|{{TableHeadingColor}} |'''Abstract''' || <protect>The mqsR gene has been shown to be positively regulated by the quorum-sensing autoinducer AI-2, which in turn activates a two-component system, the qseB-qseC operon. This operon plays an important role in biofilm formation in Escherichia coli. However, its cellular function has remained unknown. Here, we found that 1 base downstream of mqsR there is a gene, ygiT, that is co-transcribed with mqsR. Induction of mqsR caused cell growth arrest, whereas ygiT co-induction recovered cell growth. We demonstrate that MqsR (98 amino acid residues), which has no homology to the well characterized mRNA interferase MazF, is a potent inhibitor of protein synthesis that functions by degrading cellular mRNAs. In vivo and in vitro primer extension experiments showed that MqsR is an mRNA interferase specifically cleaving mRNAs at GCU. The mRNA interferase activity of purified MqsR was inhibited by purified YgiT (131 residues). MqsR forms a stable 2:1 complex with YgiT, and the complex likely functions as a repressor for the mqsR-ygiT operon by specifically binding to two different palindromic sequences present in the 5'-untranslated region of this operon.</protect>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=19690171 PubMed] Online version:[http://dx.doi.org/10.1074/jbc.M109.032904 10.1074/jbc.M109.032904]
|}
</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==
<protect>

{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
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|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.170168.P4b425e4867822&page=170168&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
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</protect>

==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
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==References==
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<references/>

PMID:19690171

2010-01-04T21:31:52Z

Twoodengr: New PMID: Page!

PMID:20041169

2010-01-04T21:30:35Z

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{{RightTOC}}
<protect>
 '''Brown, BL, Grigoriu, S, Kim, Y, Arruda, JM, Davenport, A, Wood, TK, Peti, W and Page, R''' (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

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|{{TableHeadingColor}} |'''Abstract''' || <protect>One mechanism by which bacteria survive environmental stress is through the formation of bacterial persisters, a sub-population of genetically identical quiescent cells that exhibit multidrug tolerance and are highly enriched in bacterial toxins. Recently, the Escherichia coli gene mqsR (b3022) was identified as the gene most highly upregulated in persisters. Here, we report multiple individual and complex three-dimensional structures of MqsR and its antitoxin MqsA (B3021), which reveal that MqsR:MqsA form a novel toxin:antitoxin (TA) pair. MqsR adopts an alpha/beta fold that is homologous with the RelE/YoeB family of bacterial ribonuclease toxins. MqsA is an elongated dimer that neutralizes MqsR toxicity. As expected for a TA pair, MqsA binds its own promoter. Unexpectedly, it also binds the promoters of genes important for E. coli physiology (e.g., mcbR, spy). Unlike canonical antitoxins, MqsA is also structured throughout its entire sequence, binds zinc and coordinates DNA via its C- and not N-terminal domain. These studies reveal that TA systems, especially the antitoxins, are significantly more diverse than previously recognized and provide new insights into the role of toxins in maintaining the persister state.</protect>
|-
|{{TableHeadingColor}} nowrap |'''Links''' || [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=20041169 PubMed] Online version:[http://dx.doi.org/10.1371/journal.ppat.1000706 10.1371/journal.ppat.1000706]
|}
</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==
<protect>

{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
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</protect>

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<references/>

PMID:20041169

2010-01-04T21:30:35Z

Twoodengr: New PMID: Page!