secY:Gene: Difference between revisions

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!|Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes


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Revision as of 23:27, 10 May 2010

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Alleles and Phenotypes Genetic Resources Accessions Links References Suggestions

Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

secY

Mnemonic

Secretory

Synonyms

ECK3287, b3300, JW3262, prlA[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.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

74.16 minutes 

MG1655: 3442119..3440788
gbrowse_img.php?coord=3440788..3442119&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 3370671..3372002
gbrowse_img.php?coord=3370671..3372002&genome=REL606&name=NC_012967&trackset=0&width=300&.png

BW2952

NC_012759: 3327945..3329276
gbrowse_img.php?coord=3327945..3329276&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

W3110

 

W3110: 4196319..4197650
gbrowse_img.php?coord=4196319..4197650&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 3539864..3538533
gbrowse_img.php?coord=3538533..3539864&genome=ecoli_DH10B&name=DH10B&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 Type Strain Genomic Location Evidence Reference Notes
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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

secYI290T

I290T

In secY121; alterated signal sequence interaction

seeded from UniProt:P0AGA2

secYP40S

P40S

In secY100; temperature-sensitive

seeded from UniProt:P0AGA2

secYR357H

R357H

In secY39; cold-sensitive

seeded from UniProt:P0AGA2

secYF67C

F67C

In prlA3; alterated signal sequence interaction

seeded from UniProt:P0AGA2

secYG167E

G167E

In secY100; temperature-sensitive

seeded from UniProt:P0AGA2

secYG240D

G240D

In secY24; temperature-sensitive

seeded from UniProt:P0AGA2

secYS282R

S282R

In prlA401; alterated signal sequence interaction

seeded from UniProt:P0AGA2

secYF286Y

F286Y

In prlA4-1; alterated signal sequence interaction

seeded from UniProt:P0AGA2

secYP287L

P287L

In secY161; alterated signal sequence interaction

seeded from UniProt:P0AGA2

secYA363S

A363S

In secY40; cold-sensitive

seeded from UniProt:P0AGA2

secYI408N

I408N

In prlA4-2; alterated signal sequence interaction

seeded from UniProt:P0AGA2

secY*

secY24(ts)

temperature sensitive

PMID:7665473[2] PMID:8650200[3]

CGSC:19326

secY125

Growth Phenotype

cold-sensitive

PMID:10852867[4] PMID:8190079[5]


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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

JW3262

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCGCTAAACAACCGGGATTAGA

Primer 2:CCTCGGCCGTAGCCTTTCAGGTT

smg-3082::Tn10

Linked marker

CAG12071 = CGSC7444[7]

est. P1 cotransduction: 66% [8]
Synonyms:zhb-3082::Tn10, zhd-3082::Tn10

zhf-3084::Tn10

Linked marker

CAG18456 = CGSC7576[7]

est. P1 cotransduction: 4% [8]
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 (EcoliWiki Page)

EcoCyc:EG10766

EchoBASE (EcoliWiki Page)

EchoBASE:EB0759

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3300

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C4061

EcoGene (EcoliWiki Page)

EcoGene:EG10766

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:PRLA

CGSC (EcoliWiki Page)

CGSC:18037

ASAP (EcoliWikiPage)

ASAP:ABE-0010814


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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. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ Danese, PN et al. (1995) Multicopy suppression of cold-sensitive sec mutations in Escherichia coli. J. Bacteriol. 177 4969-73 PubMed
  3. ↑ Nouwen, N et al. (1996) prlA suppressors in Escherichia coli relieve the proton electrochemical gradient dependency of translocation of wild-type precursors. Proc. Natl. Acad. Sci. U.S.A. 93 5953-7 PubMed
  4. ↑ Matsumoto, G et al. (2000) A mutation in secY that causes enhanced SecA insertion and impaired late functions in protein translocation. J. Bacteriol. 182 3377-82 PubMed
  5. ↑ Taura, T et al. (1994) Genetic analysis of SecY: additional export-defective mutations and factors affecting their phenotypes. Mol. Gen. Genet. 243 261-9 PubMed
  6. ↑ Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed
  7. ↑ 7.0 7.1 CGSC: The Coli Genetics Stock Center
  8. ↑ 8.0 8.1 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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