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rmf:On One Page

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Quickview | Gene | Product(s) | Expression| Evolution | References |

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See Help:Quickview for help with entering information in the Quickview table.

Standard Name

rmf

Gene Synonym(s)

ECK0944, b0953, JW0936, ramB, rimF, rimG, res[1]

Product Desc.

ribosome modulation factor[2][3]

Product Synonyms(s)

ribosome modulation factor[1], B0953[2][1], Res[2][1], RimF[2][1], Rmf[2][1]

Function from GO
Knock-Out Phenotype

Non-essential [4]

Regulation/Expression

transcription unit(s): rmf[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(rmf)    Textpresso(rmf)

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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

rmf

Mnemonic

Ribosome modulation factor

Synonyms

ECK0944, b0953, JW0936, ramB, rimF, rimG, res[1]

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Notes

Location(s) and DNA Sequence

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

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

21.88 minutes 

MG1655: 1014938..1015105
gbrowse_img.php?coord=1014938..1015105&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 1032806..1032973
gbrowse_img.php?coord=1032806..1032973&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 1016137..1016304
gbrowse_img.php?coord=1016137..1016304&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 1068866..1069033
gbrowse_img.php?coord=1068866..1069033&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 917906..918073
gbrowse_img.php?coord=917906..918073&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 typeLocationDescription
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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.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

Δrmf (Keio:JW0936)

deletion

deletion

PMID:16738554

Shigen
CGSC8940[5]

rmf

PMID:12519969

ASAP

At position 45 in Plus orientation, does not contain plasmid pKD46.
ASAP strain name: FB20071

rimG21

CGSC:10347

rimG22

CGSC:11197

Δrmf-769::kan

PMID:16738554

CGSC:102738


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Notes

Genetic Resources

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

ResourceResource TypeSourceNotes/Reference

JW0936

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAGAGACAAAAACGAGATCG

Primer 2:CCGGCCATTACTACCCTGTCCGC

zcb-3059::Tn10

Linked marker

CAG12094 = CGSC7358[5]

est. P1 cotransduction: 64% [6]

zcc-282::Tn10

Linked marker

CAG18466 = CGSC7359[5]

est. P1 cotransduction: 12% [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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG50004

EchoBASE (EcoliWiki Page)

EchoBASE:EB4298

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0953

EcoGene (EcoliWiki Page)

EcoGene:EG50004

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:RMF

CGSC (EcoliWiki Page)

CGSC:31760

ASAP (EcoliWikiPage)

ASAP:ABE-0003227


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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

Rmf

Synonyms

ribosome modulation factor[1], B0953[2][1], Res[2][1], RimF[2][1], Rmf[2][1]

Product description

ribosome modulation factor[2][3]

EC number (for enzymes)


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Notes

Function

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

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0042254

ribosome biogenesis

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0690

P

Seeded from EcoCyc [7]

complete

GO:0009281

cytosolic ribosome (sensu Bacteria)

C

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0006412

translation

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0005737

cytoplasm

C

Seeded from EcoCyc 11.1[3].

required fields missing

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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 TypePartnerNotesReferencesEvidence
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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes
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Notes

Structure and Physical Properties

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

Sequence

at EcoCyc 

MKRQKRDRLE RAHQRGYQAG IAGRSKEMCP YQTLNQRSQW LGGWREAMAD RVVMA
Length

55

Mol. Wt

6.506 kDa

pI

11.3 (calculated)

Extinction coefficient

13,980 - 14,105 (calc based on 2 Y, 2 W, and 1 C residues)

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Domains/Motifs/Modification Sites

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

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

Structures
Models

View models at:

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Structure figures

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 typeSourceNotes/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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG50004-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0AFW2

PFAM (EcoliWiki Page)

PFAM:PF04957

RefSeq (EcoliWiki Page)

RefSeq:NP_415473


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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

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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Notes

Transcription and Transcriptional Regulation

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

Transcription unit(s)

rmf

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Figure courtesy of RegulonDB

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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gbrowse_img.php?coord=1014918..1014958&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein&width=400&figure=Nterm&.png
This picture shows the sequence around the N-terminus.

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

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

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

TypeReferenceNotes

microarray

GEO Profiles:b0953 (EcoliWiki Page)

NCBI GEO profiles for rmf

microarray

GenExpDB:b0953 (EcoliWiki Page)

Summary of data for rmf 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 NameResource TypeDescriptionSourceNotes

GFP Fusion

Intergenic region (1014613..1014969) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ19; Well:F4[8]

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Notes

Accessions Related to rmf Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG50004

EchoBASE (EcoliWiki Page)

EchoBASE:EB4298

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0953

EcoGene (EcoliWiki Page)

EcoGene:EG50004


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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.

OrganismHomologs (Statistics)Comments

Anopheles gambiae

  • ENSANGP00000000025 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

RMF

From SHIGELLACYC

E. coli O157

RMF

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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

DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF04957


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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 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 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ Bubunenko M et al. (2007) Essentiality of ribosomal and transcription antitermination proteins analyzed by systematic gene replacement in Escherichia coli. J Bacteriol 189: 2844-53 PubMed EcoliWiki page
  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. ↑ EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ Zaslaver A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat Methods 3: 623-8 PubMed EcoliWiki page

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