rpsR:On One Page

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

Quickview

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Standard Name

rpsR

Gene Synonym(s)

ECK4198, b4202, JW4160[1], JW4160

Product Desc.

30S ribosomal subunit protein S18[2][3];

Component of 30S ribosomal subunit[2][3]; ribosome[2][3]

30S ribosomal subunit protein S18[4]

Product Synonyms(s)

30S ribosomal subunit protein S18[1], B4202[2][1], RpsR[2][1] , ECK4198, JW4160, b4202

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): rpsF-priB-rpsR-rplI[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

rpsR

Mnemonic

Ribosomal protein, small

Synonyms

ECK4198, b4202, JW4160[1], JW4160

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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

95.35 minutes 

MG1655: 4423862..4424089
<gbrowseImage> name=NC_000913:4423862..4424089 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4403994..4404221
<gbrowseImage> name=NC_012967:4403994..4404221 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4362597..4362824
<gbrowseImage> name=NC_012759:4362597..4362824 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4430519..4430746
<gbrowseImage> name=NC_007779:4430519..4430746 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4524224..4524451
<gbrowseImage> name=NC_010473:4524224..4524451 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

4423865

Edman degradation

PMID:776663


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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

Ksg r rpsR MV9

Resistant to

Resistant to Kasugamycin

PMID:363701

The resistance was dependent on the temperature it was grown at; 42C. See Figure 2

Ksgd rpsR MV9

Antibiotic Depedence

Kasugamycin Dependence

PMID:363701

The antibiotic dependence was dependent on the temperature it was grown at; 30 C. See Figure 2b for gel electropherogram. MV 2, 29, 34 and 35 had were also Ksgd, see table 1.

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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

JW4160

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCACGTTATTTCCGTCGTCG

Primer 2:CCtTGATGGCGATCAGTGTACGG

1G10

Kohara Phage

Genobase

PMID:3038334

7E9

Kohara Phage

Genobase

PMID:3038334

cadB2231::Tn10

Linked marker

CAG18488 = CGSC7479[5]

est. P1 cotransduction: 2% [6]
Synonyms:zjd-2231::Tn10

cycA30::Tn10

Linked marker

CAG12073 = CGSC7482[5]

est. P1 cotransduction: 92% [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:EG10917

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10917

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000908

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948721

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0910

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013744

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

RpsR

Synonyms

30S ribosomal subunit protein S18[1], B4202[2][1], RpsR[2][1] , ECK4198, JW4160, b4202

Product description

30S ribosomal subunit protein S18[2][3];

Component of 30S ribosomal subunit[2][3]; ribosome[2][3]

30S ribosomal subunit protein S18[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:0003723

RNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0694

F

Seeded from EcoCyc (v14.0)

complete

GO:0003735

structural constituent of ribosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001648

F

Seeded from EcoCyc (v14.0)

complete

GO:0003735

structural constituent of ribosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018275

F

Seeded from EcoCyc (v14.0)

complete

GO:0022627

cytosolic small ribosomal subunit

C

Missing: evidence, reference

GO:0005840

ribosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001648

C

Seeded from EcoCyc (v14.0)

complete

GO:0005840

ribosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018275

C

Seeded from EcoCyc (v14.0)

complete

GO:0005840

ribosome

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0689

C

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00270

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001648

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018275

P

Seeded from EcoCyc (v14.0)

complete

GO:0019843

rRNA binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00270

F

Seeded from EcoCyc (v14.0)

complete

GO:0019843

rRNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0699

F

Seeded from EcoCyc (v14.0)

complete

GO:0030529

ribonucleoprotein complex

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0687

C

Seeded from EcoCyc (v14.0)

complete

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 30S ribosomal subunit

could be indirect

Protein

rpsI

PMID:16606699

Experiment(s):EBI-1147674

Protein

rpmB

PMID:16606699

Experiment(s):EBI-1147674

Protein

rplQ

PMID:16606699

Experiment(s):EBI-1147674

Protein

yafO

PMID:16606699

Experiment(s):EBI-1147674

Protein

yciH

PMID:16606699

Experiment(s):EBI-1147674

Protein

Subunits of ribosome

could be indirect


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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

MARYFRRRKF CRFTAEGVQE IDYKDIATLK NYITESGKIV PSRITGTRAK YQRQLARAIK
RARYLSLLPY TDRHQ
Length

75

Mol. Wt

8.986 kDa

pI

11.0 (calculated)

Extinction coefficient

8,940 - 9,065 (calc based on 6 Y, 0 W, and 1 C residues)


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

Initiator Methionine

1

Removed

UniProt:P0A7T7

Domain

15..68

PF01084 Ribosomal protein S18

PMID:19920124

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

Structures

<beststructure> gene=rpsR 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:16132024

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948721

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013744

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A7T7

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10917

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10917

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948721

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000908

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0910

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 MC4100

3.90E+04

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

E. coli K-12 MG1655

153647

molecules/cell/generation

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

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

22547

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

46372

molecules/cell/generation

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

Ribosome Profiling

PMID: 24766808

Notes

Transcription and Transcriptional Regulation

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

Transcription unit(s)

rpsF-priB-rpsR-rplI

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_000913:4423842..4423882 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


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

Type Reference Notes

microarray

GEO Profiles:b4202 (EcoliWiki Page)

NCBI GEO profiles for rpsR

microarray

GenExpDB:b4202 (EcoliWiki Page)

Summary of data for rpsR from multiple microarray studies


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

Resource Name Resource Type Description Source Notes

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Notes

Accessions Related to rpsR Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10917

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0910

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4202

EcoGene

EcoGene:EG10917

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000908

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013744

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Arabidopsis thaliana

  • AT1G07210 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000028792 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

RPSR

From SHIGELLACYC

E. coli O157

RPSR

From ECOO157CYC


Do-It-Yourself Web Tools

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Notes

Families

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

Database Accession Notes

Superfamily (EcoliWiki Page)

SUPERFAMILY:46911

Panther (EcoliWiki Page)

PTHR13479:SF16

Pfam (EcoliWiki Page)

PF01084 Ribosomal protein S18

EcoCyc

EcoCyc:EG10917

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10917

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000908

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0910

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013744

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. 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 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 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 3.4 3.5 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 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).

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