rplW: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

rplW

Gene Synonym(s)

ECK3305, b3318, JW3280[1], JW3280

Product Desc.

50S ribosomal subunit protein L23[2][3];

Component of 50S ribosomal subunit[3]; ribosome[2][3]

50S ribosomal subunit protein L23[4]

Product Synonyms(s)

50S ribosomal subunit protein L23[1], B3318[2][1], RplW[2][1] , ECK3305, JW3280, b3318

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): rpsJ-rplCDWB-rpsS-rplV-rpsC-rplP-rpmC-rpsQ[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

rplW

Mnemonic

Ribosomal protein, large

Synonyms

ECK3305, b3318, JW3280[1], JW3280

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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

74.35 minutes, 74.35 minutes 

MG1655: 3449706..3449404
<gbrowseImage> name=NC_000913:3449404..3449706 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3379589..3379287
<gbrowseImage> name=NC_012967:3379287..3379589 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3336561..3336863
<gbrowseImage> name=NC_012759:3336561..3336863 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4188732..4189034
<gbrowseImage> name=NC_007779:4188732..4189034 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3547451..3547149
<gbrowseImage> name=NC_010473:3547149..3547451 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

3449404

Edman degradation

PMID:391594


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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

rplWVSE16AAA

VSE16AAA

Strongly reduces trigger factor binding

seeded from UniProt:P0ADZ0

rplWE18A

E18A

Binds normally to ribosomes; strongly reduces trigger factor binding

seeded from UniProt:P0ADZ0

rplWE18Q

E18Q

Strongly reduces trigger factor binding

seeded from UniProt:P0ADZ0

rplWFEV51AAA

FEV51AAA

No effect on trigger factor binding

seeded from UniProt:P0ADZ0

rplWE52K

E52K

No effect on trigger factor binding

seeded from UniProt:P0ADZ0

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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

JW3280

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCATTCGTGAAGAACGTCTGCT

Primer 2:CCtTCAGCGCCGCCAACGAAGTC

E1H9

Kohara Phage

Genobase

PMID:3038334

smg-3082::Tn10

Linked marker

CAG12071 = CGSC7444[5]

est. P1 cotransduction: 47% [6]
Synonyms:zhb-3082::Tn10, zhd-3082::Tn10

zhf-3084::Tn10

Linked marker

CAG18456 = CGSC7576[5]

est. P1 cotransduction: 8% [6]
Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).

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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:EG10883

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10883

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000874

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947819

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0876

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010856

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

RplW

Synonyms

50S ribosomal subunit protein L23[1], B3318[2][1], RplW[2][1] , ECK3305, JW3280, b3318

Product description

50S ribosomal subunit protein L23[2][3];

Component of 50S ribosomal subunit[3]; ribosome[2][3]

50S ribosomal subunit protein L23[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:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012677

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001014

F

Seeded from EcoCyc (v14.0)

complete

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:IPR001014

F

Seeded from EcoCyc (v14.0)

complete

GO:0003735

structural constituent of ribosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012678

F

Seeded from EcoCyc (v14.0)

complete

GO:0003735

structural constituent of ribosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013025

F

Seeded from EcoCyc (v14.0)

complete

GO:0005840

ribosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001014

C

Seeded from EcoCyc (v14.0)

complete

GO:0005840

ribosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012678

C

Seeded from EcoCyc (v14.0)

complete

GO:0005840

ribosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013025

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_01369

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001014

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012678

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013025

P

Seeded from EcoCyc (v14.0)

complete

GO:0019843

rRNA binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01369

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

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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 50S ribosomal subunit

could be indirect

Protein

rplA

PMID:15690043

Experiment(s):EBI-881262, EBI-888568

Protein

rplB

PMID:15690043

Experiment(s):EBI-881262, EBI-888568

Protein

rplC

PMID:15690043

Experiment(s):EBI-881262, EBI-888568

Protein

rplD

PMID:15690043

Experiment(s):EBI-881262, EBI-888568

Protein

rplJ

PMID:15690043

Experiment(s):EBI-881262

Protein

secA

PMID:15690043

Experiment(s):EBI-881262

Protein

rplE

PMID:15690043

Experiment(s):EBI-888568

Protein

rplF

PMID:15690043

Experiment(s):EBI-888568

Protein

rplI

PMID:15690043

Experiment(s):EBI-888568

Protein

rplK

PMID:15690043

Experiment(s):EBI-888568

Protein

rplL

PMID:15690043

Experiment(s):EBI-888568

Protein

rplM

PMID:15690043

Experiment(s):EBI-888568

Protein

rplO

PMID:15690043

Experiment(s):EBI-888568

Protein

rplS

PMID:15690043

Experiment(s):EBI-888568

Protein

rplU

PMID:15690043

Experiment(s):EBI-888568

Protein

rplV

PMID:15690043

Experiment(s):EBI-888568

Protein

rplX

PMID:15690043

Experiment(s):EBI-888568

Protein

rplY

PMID:15690043

Experiment(s):EBI-888568

Protein

rpmB

PMID:15690043

Experiment(s):EBI-888568

Protein

rpmC

PMID:15690043

Experiment(s):EBI-888568

Protein

rpmG

PMID:15690043

Experiment(s):EBI-888568

Protein

rpsC

PMID:15690043

Experiment(s):EBI-888568

Protein

rplR

PMID:15690043

Experiment(s):EBI-888568

Protein

rpsE

PMID:16606699

Experiment(s):EBI-1145566

Protein

rplY

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplJ

PMID:19402753

MALDI(Z-score):21.445283

Protein

rplS

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpmG

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplU

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsC

PMID:19402753

LCMS(ID Probability):99.2

Protein

rpmB

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplA

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):33.228015

Protein

rplF

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplT

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplK

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplE

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplB

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):38.342783

Protein

rplI

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):3.292815

Protein

smpB

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplX

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpmF

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplO

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):2.128924

Protein

rpmC

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplQ

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplR

PMID:19402753

LCMS(ID Probability):99.4

Protein

rplD

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):8.059912

Protein

rplL

PMID:19402753

LCMS(ID Probability):99.6

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 

MIREERLLKV LRAPHVSEKA STAMEKSNTI VLKVAKDATK AEIKAAVQKL FEVEVEVVNT
LVVKGKVKRH GQRIGRRSDW KKAYVTLKEG QNLDFVGGAE
Length

100

Mol. Wt

11.198 kDa

pI

10.4 (calculated)

Extinction coefficient

6,990 (calc based on 1 Y, 1 W, and 0 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

8..99

PF00276 Ribosomal protein L23

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=rplW 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:16131197

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947819

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010856

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ADZ0

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10883

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10883

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947819

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000874

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0876

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

4.53E+05

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

103687

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

17428

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

47591

molecules/cell/generation

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

Ribosome Profiling

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)

rpsJ-rplCDWB-rpsS-rplV-rpsC-rplP-rpmC-rpsQ

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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_000913:3449686..3449726 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

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

Turnover and Regulation of Turnover

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Notes

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

Experimental

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

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

Type Reference Notes

microarray

GEO Profiles:b3318 (EcoliWiki Page)

NCBI GEO profiles for rplW

microarray

GenExpDB:b3318 (EcoliWiki Page)

Summary of data for rplW 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
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Notes

Accessions Related to rplW Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10883

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0876

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3318

EcoGene

EcoGene:EG10883

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000874

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010856

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

  • AT4G39880 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

RPLW

From SHIGELLACYC

E. coli O157

RPLW

From ECOO157CYC

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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:54189

Panther (EcoliWiki Page)

PTHR11620:SF2

Pfam (EcoliWiki Page)

PF00276 Ribosomal protein L23

EcoCyc

EcoCyc:EG10883

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10883

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000874

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0876

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010856

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. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 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).

Categories

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