rcsA:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

rcsA

Gene Synonym(s)

ECK1949, b1951, JW1935, cpsR[1], cpsR

Product Desc.

positive DNA-binding transcriptional regulator of capsular polysaccharide synthesis, activates its own expression[2][3];

Component of RcsAB transcriptional dual regulator[2][3]

Positive regulatory gene for capsule (colanic acid) synthesis; two regulatory proteins are derived from the same gene[4]

Product Synonyms(s)

DNA-binding transcriptional activator, co-regulator with RcsB[1], B1951[2][1], CpsR[2][1], RcsA[2][1], positive regulator of capsular polysaccharide synthesis[2][1] , cpsR, ECK1949, JW1935, b1951

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): rcsA[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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Gene

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Nomenclature

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

Standard name

rcsA

Mnemonic

Regulator of capsule synthesis

Synonyms

ECK1949, b1951, JW1935, cpsR[1], cpsR

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Notes

Location(s) and DNA Sequence

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

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

43.58 minutes, 43.58 minutes 

MG1655: 2021992..2022615
<gbrowseImage> name=NC_000913:2021992..2022615 source=MG1655 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1914475..1915098
<gbrowseImage> name=NC_012759:1914475..1915098 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2026105..2026728
<gbrowseImage> name=NC_007779:2026105..2026728 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2113000..2113623
<gbrowseImage> name=NC_010473:2113000..2113623 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

2021995

Edman degradation

PMID:1999391


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Notes

Alleles and Phenotypes

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

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ΔrcsA (Keio:JW1935)

deletion

deletion

PMID:16738554

Shigen
CGSC9610[5]

rcsA::Tn5KAN-2 (FB20546)

Insertion at nt 576 in Minus orientation

PMID:15262929

E. coli Genome Project:FB20546

does not contain pKD46

rcsA::Tn5KAN-2 (FB20547)

Insertion at nt 576 in Minus orientation

PMID:15262929

E. coli Genome Project:FB20547

contains pKD46

rcsAM145V

M145V

In rcsA*; increased capsule synthesis

seeded from UniProt:P69405

rcsAR67H

R67H

(in strain: O9:K30:H12)

Strain variation; seeded from UniProt:P69405

rcsAL70H

L70H

(in strain: O9:K30:H12)

Strain variation; seeded from UniProt:P69405

ΔrcsA726::kan

PMID:16738554

CGSC:102610


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Notes

Genetic Interactions

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

Genetic Resources

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

Resource Resource Type Source Notes/Reference

JW1935

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTCAACGATTATTATGGATTT

Primer 2:CCGCGCATGTTGACAAAAATACC

3B3

Kohara Phage

Genobase

PMID:3038334

25D8

Kohara Phage

Genobase

PMID:3038334

uvrC279::Tn10

Linked marker

CAG12156 = CGSC7394[5]

est. P1 cotransduction: 29% [6]

zed-3069::Tn10

Linked marker

CAG18451 = CGSC7395[5]

est. P1 cotransduction: 59% [6]

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Notes

Accessions in Other Databases

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

Database Accession Notes

EcoCyc

EcoCyc:EG10820

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10820

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000811

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946467

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0813

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006482

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Product(s)

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Nomenclature

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

Standard name

RcsA

Synonyms

DNA-binding transcriptional activator, co-regulator with RcsB[1], B1951[2][1], CpsR[2][1], RcsA[2][1], positive regulator of capsular polysaccharide synthesis[2][1] , cpsR, ECK1949, JW1935, b1951

Product description

positive DNA-binding transcriptional regulator of capsular polysaccharide synthesis, activates its own expression[2][3];

Component of RcsAB transcriptional dual regulator[2][3]

Positive regulatory gene for capsule (colanic acid) synthesis; two regulatory proteins are derived from the same gene[4]

EC number (for enzymes)


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Notes

Function

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

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status

GO:0000156

two-component response regulator activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016032

F

Seeded from EcoCyc (v14.0)

complete

GO:0000160

two-component signal transduction system (phosphorelay)

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016032

P

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016032

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000792

F

Seeded from EcoCyc (v14.0)

complete

GO:0005622

intracellular

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000792

C

Seeded from EcoCyc (v14.0)

complete

GO:0005622

intracellular

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016032

C

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000792

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016032

P

Seeded from EcoCyc (v14.0)

complete

GO:0043565

sequence-specific DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000792

F

Seeded from EcoCyc (v14.0)

complete

GO:0050896

response to stimulus

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0716

P

Seeded from EcoCyc (v14.0)

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

Subunits of RcsAB transcriptional dual regulator

could be indirect

Protein

add

PMID:15690043

Experiment(s):EBI-882652

Protein

cadA

PMID:15690043

Experiment(s):EBI-882652

Protein

dnaK

PMID:15690043

Experiment(s):EBI-882652

Protein

hupA

PMID:15690043

Experiment(s):EBI-882652

Protein

hycC

PMID:15690043

Experiment(s):EBI-882652

Protein

rplB

PMID:15690043

Experiment(s):EBI-882652

Protein

rplC

PMID:15690043

Experiment(s):EBI-882652

Protein

rplD

PMID:15690043

Experiment(s):EBI-882652

Protein

rplE

PMID:15690043

Experiment(s):EBI-882652

Protein

rplM

PMID:15690043

Experiment(s):EBI-882652

Protein

rplP

PMID:15690043

Experiment(s):EBI-882652

Protein

rplS

PMID:15690043

Experiment(s):EBI-882652

Protein

rplT

PMID:15690043

Experiment(s):EBI-882652

Protein

rplU

PMID:15690043

Experiment(s):EBI-882652

Protein

rplV

PMID:15690043

Experiment(s):EBI-882652

Protein

rplW

PMID:15690043

Experiment(s):EBI-882652

Protein

rpmC

PMID:15690043

Experiment(s):EBI-882652

Protein

rpsB

PMID:15690043

Experiment(s):EBI-882652

Protein

rpsF

PMID:15690043

Experiment(s):EBI-882652

Protein

rpsG

PMID:15690043

Experiment(s):EBI-882652

Protein

rpsM

PMID:15690043

Experiment(s):EBI-882652

Protein

rpsN

PMID:15690043

Experiment(s):EBI-882652

Protein

rpmG

PMID:15690043

Experiment(s):EBI-882652

Protein

rhsC

PMID:16606699

Experiment(s):EBI-1141484

Protein

groL

PMID:16606699

Experiment(s):EBI-1141484

Protein

pgi

PMID:16606699

Experiment(s):EBI-1141484

Protein

rhsA

PMID:16606699

Experiment(s):EBI-1141484

Protein

add

PMID:19402753

LCMS(ID Probability):99.0

Protein

cadA

PMID:19402753

LCMS(ID Probability):99.0

Protein

hycC

PMID:19402753

LCMS(ID Probability):99.0

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Notes

Localization

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

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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

Name
Sequence

at EcoCyc 

MSTIIMDLCS YTRLGLTGYL LSRGVKKREI NDIETVDDLA IACDSQRPSV VFINEDCFIH
DASNSQRIKL IINQHPNTLF IVFMAIANVH FDEYLLVRKN LLISSKSIKP ESLDDILGDI
LKKETTITSF LNMPTLSLSR TESSMLRMWM AGQGTIQISD QMNIKAKTVS SHKGNIKRKI
KTHNKQVIYH VVRLTDNVTN GIFVNMR
Length

207

Mol. Wt

23.517 kDa

pI

9.6 (calculated)

Extinction coefficient

11,460 - 11,835 (calc based on 4 Y, 1 W, and 3 C residues)

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Domains/Motifs/Modification Sites

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

Type Residues Description Notes References

Domain

135..192

PF00196 Bacterial regulatory proteins, luxR family

PMID:19920124

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<motif_map/>

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

Structures

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

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16129898

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946467

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006482

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P69405

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10820

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10820

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946467

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000811

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0813

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Expression

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Overview

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


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MG1655

14a

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

Protein

E. coli K-12 MG1655

74

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

0a

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

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Notes

Transcription and Transcriptional Regulation

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<protect>

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

Transcription unit(s)

rcsA

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Figure courtesy of RegulonDB

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Notes

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

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:2021972..2022012 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

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

Turnover and Regulation of Turnover

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Notes

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

Experimental

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

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

Type Reference Notes

microarray

GEO Profiles:b1951 (EcoliWiki Page)

NCBI GEO profiles for rcsA

microarray

GenExpDB:b1951 (EcoliWiki Page)

Summary of data for rcsA from multiple microarray studies

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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (2021622..2022024) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ18; Well:E9[7]

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Notes

Accessions Related to rcsA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10820

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0813

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1951

EcoGene

EcoGene:EG10820

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000811

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006482

Escherichia coli str. K-12 substr. MG1655

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Notes

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Evolution

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Homologs in Other Organisms

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

Organism Homologs (Statistics) Comments

Shigella flexneri

RCSA

From SHIGELLACYC

E. coli O157

RCSA

From ECOO157CYC

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Do-It-Yourself Web Tools

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Notes

Families

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Database Accession Notes

Pfam (EcoliWiki Page)

PF00196 Bacterial regulatory proteins, luxR family

Superfamily (EcoliWiki Page)

SUPERFAMILY:46894

EcoCyc

EcoCyc:EG10820

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10820

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000811

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0813

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006482

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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

  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 2.12 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 3.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
  7. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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