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recJ:On One Page

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Standard Name

recJ

Gene Synonym(s)

ECK2887, b2892, JW2860[1]

Product Desc.

RecJ[2][3]

ssDNA 5'-3' exonuclease involved in recombination[4]

Product Synonyms(s)

ssDNA exonuclease, 5' --> 3'-specific[1], B2892[2][1], RecJ[2][1]

Function from GO

Molecular Function

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): dsbC-recJ-prfB[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(recJ)    Textpresso(recJ)

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Notes

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Lovett and Kolodner (1989) N-terminally sequenced RecJ, but the native RBS was not used to direct translation, so it has been removed from the Verified Set. theless, the GTG start codon has been confirmed by mutational analysis in Haggerty and Lovett (1997).[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

recJ

Mnemonic

Recombination

Synonyms

ECK2887, b2892, JW2860[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

65.4 minutes 

MG1655: 3036128..3034395
gbrowse_img.php?coord=3034395..3036128&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 2923859..2922126
gbrowse_img.php?coord=2922126..2923859&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 3036762..3035029
gbrowse_img.php?coord=3035029..3036762&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 3129998..3128265
gbrowse_img.php?coord=3128265..3129998&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 2921543..2923276
gbrowse_img.php?coord=2921543..2923276&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

ΔrecJ (Keio:JW2860)

deletion

deletion

PMID:16738554

Shigen
CGSC10217[5]

recJ::Tn5KAN

PMID:12519969

ASAP

At position 1026 in Minus orientation, contains plasmid pKD46.
ASAP strain name: FB20963

recJ::Tn5KAN

PMID:12519969

ASAP

At position 1026 in Minus orientation, does not contain plasmid pKD46.
ASAP strain name: FB20964

recJ284::Tn10

Insertion of Tn10 (Tetracycline-resistance) at nucleotide 434 relative to GTG start codon

truncation

null phenotype, recombination deficient and UV-sensitive in recBC sbcA and recBC sbcBC backgrounds. Highly synergistic for UV-sensitivity, recombination deficiency and partial inviability with recBC.

[6]

CGSC

recJ77

G to A nucleotide 281

G to D amino acid 78

similar to recJ284, null

[6] [7]

recJ153 recJ154

GTG to GTA at start codon

None

Reduces expression of recJ gene, can be suppressed by mutations in initiation factor IF3 for translation

[8] [6] [9]

recJ153

CGSC:7801

recJ284::Tn10

CGSC:72003

ΔrecJ743::kan

PMID:16738554

CGSC:102628


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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

JW2860

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAACAACAGATACAACTTCG

Primer 2:CCAATTGGCCAGATATTGTCGAT

recD1901::Tn10

Linked marker

CAG12135 = CGSC7429[5]

est. P1 cotransduction: % [10]

speA210::Tn10

Linked marker

CAG12168 = CGSC7431[5]

est. P1 cotransduction: 9% [10]
Synonyms:zgd-210::Tn10, zgf-210::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:EG10830

EchoBASE (EcoliWiki Page)

EchoBASE:EB0823

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2892

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3472

EcoGene (EcoliWiki Page)

EcoGene:EG10830

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:RECJ

CGSC (EcoliWiki Page)

CGSC:17965

ASAP (EcoliWikiPage)

ASAP:ABE-0009492


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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

RecJ

Synonyms

ssDNA exonuclease, 5' --> 3'-specific[1], B2892[2][1], RecJ[2][1]

Product description

RecJ[2][3]

ssDNA 5'-3' exonuclease involved in recombination[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:0005515

protein binding

PMID:16606699

IPI: Inferred from Physical Interaction

UniProtKB:P76298

F

Seeded from EcoCyc [11]

complete

GO:0030145

manganese ion binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001667

F

Seeded from EcoCyc [11]

complete

GO:0016787

hydrolase activity

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR001667
SP_KW:KW-0378

F

Seeded from EcoCyc [11]

complete

GO:0008409

5'-3' exonuclease activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004610

F

Seeded from EcoCyc [11]

complete

GO:0006310

DNA recombination

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004610

P

Seeded from EcoCyc [11]

complete

GO:0006281

DNA repair

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004610

P

Seeded from EcoCyc [11]

complete

GO:0004527

exonuclease activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0269

F

Seeded from EcoCyc [11]

complete

GO:0004518

nuclease activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0540

F

Seeded from EcoCyc [11]

complete

GO:0003676

nucleic acid binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003156

F

Seeded from EcoCyc [11]

complete

GO:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

required fields missing

GO:0006308

DNA catabolic process

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

Protein

flhA

PMID:16606699

Experiment(s):EBI-1144203

Protein

aceE

PMID:15690043

Experiment(s):EBI-881943

Protein

aceF

PMID:15690043

Experiment(s):EBI-881943

Protein

dnaJ

PMID:15690043

Experiment(s):EBI-881943

Protein

lpdA

PMID:15690043

Experiment(s):EBI-881943, EBI-889451

Protein

rnhA

PMID:15690043

Experiment(s):EBI-881943, EBI-881230, EBI-889451

Protein

sbcB

PMID:15690043

Experiment(s):EBI-881943

Protein

topB

PMID:15690043

Experiment(s):EBI-881943

Protein

tufA

PMID:15690043

Experiment(s):EBI-881943

Protein

dnaK

PMID:15690043

Experiment(s):EBI-889451

Protein

galR

PMID:15690043

Experiment(s):EBI-889451

Protein

mtlD

PMID:15690043

Experiment(s):EBI-889451

Protein

rplD

PMID:15690043

Experiment(s):EBI-889451

Protein

rplV

PMID:15690043

Experiment(s):EBI-889451

Protein

rpmB

PMID:15690043

Experiment(s):EBI-889451

Protein

rpsP

PMID:15690043

Experiment(s):EBI-889451

Protein

ruvA

PMID:15690043

Experiment(s):EBI-889451

Protein

yhbY

PMID:15690043

Experiment(s):EBI-889451

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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 

MKQQIQLRRR EVDETADLPA ELPPLLRRLY ASRGVRSAQE LERSVKGMLP WQQLSGVEKA
VEILYNAFRE GTRIIVVGDF DADGATSTAL SVLAMRSLGC SNIDYLVPNR FEDGYGLSPE
VVDQAHARGA QLIVTVDNGI SSHAGVEHAR SLGIPVIVTD HHLPGDTLPA AEAIINPNLR
DCNFPSKSLA GVGVAFYLML ALRTFLRDQG WFDERNIAIP NLAELLDLVA LGTVADVVPL
DANNRILTWQ GMSRIRAGKC RPGIKALLEV ANRDAQKLAA SDLGFALGPR LNAAGRLDDM
SVGVALLLCD NIGEARVLAN ELDALNQTRK EIEQGMQIEA LTLCEKLERS RDTLPGGLAM
YHPEWHQGVV GILASRIKER FHRPVIAFAP AGDGTLKGSG RSIQGLHMRD ALERLDTLYP
GMMLKFGGHA MAAGLSLEED KFKLFQQRFG ELVTEWLDPS LLQGEVVSDG PLSPAEMTME
VAQLLRDAGP WGQMFPEPLF DGHFRLLQQR LVGERHLKVM VEPVGGGPLL DGIAFNVDTA
LWPDNGVREV QLAYKLDINE FRGNRSLQII IDNIWPI
Length

577

Mol. Wt

63.39 kDa

pI

5.4 (calculated)

Extinction coefficient

55,920 - 56,545 (calc based on 8 Y, 8 W, and 5 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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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:EG10830-MONOMER

UniProt (EcoliWiki Page)

UniProt:P21893

PFAM (EcoliWiki Page)

PFAM:PF01368

RefSeq (EcoliWiki Page)

RefSeq:NP_417368


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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)

dsbC-recJ-prfB

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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=3036108..3036148&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein+flip&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:b2892 (EcoliWiki Page)

NCBI GEO profiles for recJ

microarray

GenExpDB:b2892 (EcoliWiki Page)

Summary of data for recJ 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 recJ Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10830

EchoBASE (EcoliWiki Page)

EchoBASE:EB0823

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2892

EcoGene (EcoliWiki Page)

EcoGene:EG10830


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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

Xenopus tropicalis

  • ENSXETP00000028748 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

RECJ

From SHIGELLACYC

E. coli O157

RECJ

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF01368


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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 1.8 1.9 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 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 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 6.2 Lovett ST & Clark AJ (1984) Genetic analysis of the recJ gene of Escherichia coli K-12. J Bacteriol 157: 190-6 PubMed EcoliWiki page
  7. ↑ Gillen JR et al. (1981) Genetic analysis of the RecE pathway of genetic recombination in Escherichia coli K-12. J Bacteriol 145: 521-32 PubMed EcoliWiki page
  8. ↑ Horii Z & Clark AJ (1973) Genetic analysis of the recF pathway to genetic recombination in Escherichia coli K12: isolation and characterization of mutants. J Mol Biol 80: 327-44 PubMed EcoliWiki page
  9. ↑ Haggerty TJ & Lovett ST (1997) IF3-mediated suppression of a GUA initiation codon mutation in the recJ gene of Escherichia coli. J Bacteriol 179: 6705-13 PubMed EcoliWiki page
  10. ↑ 10.0 10.1 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).
  11. ↑ 11.0 11.1 11.2 11.3 11.4 11.5 11.6 11.7 11.8 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70

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