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fimE:On One Page

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

Standard Name

fimE

Gene Synonym(s)

ECK4304, b4313, JW4276, pilH, hyp[1]

Product Desc.

regulator for fimA[2][3]

Site-specific recombinase, fimA promoter inversion; biased towards the "ON to OFF" phase switching direction[4]

Product Synonyms(s)

tyrosine recombinase/inversion of on/off regulator of fimA product[1], B4313 product[2][1], Hyp product[2][1], PilH product[2][1], FimE product[2][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): fimE[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(fimE)    Textpresso(fimE)

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Notes

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FimE forms a transient covalent Tyr linkage to DNA.[4]



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

fimE

Mnemonic

Fimbriae

Synonyms

ECK4304, b4313, JW4276, pilH, hyp[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

97.85 minutes 

MG1655: 4540060..4540656
gbrowse_img.php?coord=4540060..4540656&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 4522951..4523547
gbrowse_img.php?coord=4522951..4523547&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 4546717..4547313
gbrowse_img.php?coord=4546717..4547313&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

BW2952

NC_012759: 4478536..4479141
gbrowse_img.php?coord=4478536..4479141&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

ΔfimE (Keio:JW4276)

deletion

deletion

PMID:16738554

Shigen
CGSC11064[5]

fimE1::IS1-

PMID:1679429

CGSC:59748

ΔfimE781::kan

PMID:16738554

CGSC:100870


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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

JW4276

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAGTAAACGTCGTTATCTTAC

Primer 2:CCAACCTCTTCTCTTTTTAATT

zjf-920::Tn10

Linked marker

CAG12019 = CGSC7484[5]

est. P1 cotransduction: % [6]
Synonyms:zjh-901::Tn10, zjg-920::Tn10

mdoB202::Tn10

Linked marker

CAG18430 = CGSC7488[5]

est. P1 cotransduction: 8% [6]
Synonyms:zjj-202::Tn10, zji-202::Tn10

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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:EG10312

EchoBASE (EcoliWiki Page)

EchoBASE:EB0308

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4313

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C5392

EcoGene (EcoliWiki Page)

EcoGene:EG10312

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:FIME

CGSC (EcoliWiki Page)

CGSC:18346

ASAP (EcoliWikiPage)

ASAP:ABE-0014143


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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

FimE product

Synonyms

tyrosine recombinase/inversion of on/off regulator of fimA product[1], B4313 product[2][1], Hyp product[2][1], PilH product[2][1], FimE product[2][1]

Product description

regulator for fimA[2][3]

Site-specific recombinase, fimA promoter inversion; biased towards the "ON to OFF" phase switching direction[4]

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:0042995

cell projection

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0966

C

Seeded from EcoCyc 12.5 [7]

complete

GO:0015074

DNA integration

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002104
InterPro:IPR013762

P

Seeded from EcoCyc [8]

complete

GO:0009289

fimbrium

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0281

C

Seeded from EcoCyc [8]

complete

GO:0006355

regulation of transcription, DNA-dependent

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0805

P

Seeded from EcoCyc [8]

complete

GO:0006350

transcription

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc [8]

complete

GO:0006313

transposition, DNA-mediated

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0229

P

Seeded from EcoCyc 12.5 [7]

complete

GO:0006310

DNA recombination

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR002104
InterPro:IPR013762
SP_KW:KW-0233

P

Seeded from EcoCyc [8]

complete

GO:0003677

DNA binding

GO_REF:0000002
GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002104
InterPro:IPR011010
InterPro:IPR013762

F

Seeded from EcoCyc [8]

complete

GO:0032196

transposition

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0229

P

Seeded from EcoCyc [8]

complete

GO:0005737

cytoplasm

C

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0009297

pilus biogenesis

P

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 

MSKRRYLTGK EVQAMMQAVC YGATGARDYC LILLAYRHGM RISELLDLHY QDLDLNEGRI
NIRRLKNGFS TVHPLRFDER EAVERWTQER ANWKGADRTD AIFISRRGSR LSRQQAYRII
RDAGIEAGTV TQTHPHMLRH ACGYELAERG ADTRLIQDYL GHRNIRHTVR YTASNAARFA
GLWERNNLIN EKLKREEV
Length

198

Mol. Wt

23.116 kDa

pI

10.2 (calculated)

Extinction coefficient

29,910 - 30,285 (calc based on 9 Y, 3 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.

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:EG10312-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0ADH7

PFAM (EcoliWiki Page)

PFAM:PF00589

RefSeq (EcoliWiki Page)

RefSeq:NP_418733


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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)

fimE

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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=4540040..4540080&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:b4313 (EcoliWiki Page)

NCBI GEO profiles for fimE

microarray

GenExpDB:b4313 (EcoliWiki Page)

Summary of data for fimE 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
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Notes

Accessions Related to fimE Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10312

EchoBASE (EcoliWiki Page)

EchoBASE:EB0308

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4313

EcoGene (EcoliWiki Page)

EcoGene:EG10312


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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

Shigella flexneri

FIME

From SHIGELLACYC

E. coli O157

FIME

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:PF00589


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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 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 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. ↑ 7.0 7.1 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  8. ↑ 8.0 8.1 8.2 8.3 8.4 8.5 8.6 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70

Categories

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