bamE:Gene: Difference between revisions

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''ECK2613, b2617, JW2598, smqA, bamE ''<ref name='LIB:Riley_2006'/><ref name='LIB:EcoGene'/>
''ECK2613, b2617, JW2598, smqA, bamE ''<ref name='LIB:Riley_2006'/><ref name='LIB:EcoGene'/>
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*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:2752261..2752602&plugin_action=Go FASTA Dump]  
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!Feature type!!Location!!Description
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Synonyms:zfh-3131::Tn10, zfi-3131::Tn10  
Synonyms:zfh-3131::Tn10, zfi-3131::Tn10  
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Revision as of 08:33, 30 April 2008

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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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Standard name

smpA

Mnemonic
Synonyms

ECK2613, b2617, JW2598, smqA, bamE [1][2]

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

Notes

A consensus has been reached for renaming the genes that encode components of the outer membrane β-barrel assembly machine, (formerly known as the YaeT complex of E. coli or the Omp85 complex of N. meningitidis). The new designation for this multi-component structure is the Bam complex (for beta-barrel assembly machine).

The Bam complex in E. coli consists of BamA (YaeT), BamB (YfgL), BamC (NlpB), BamD (YfiO), and BamE (SmpA). Letters have been assigned on the basis of molecular weight, from highest to lowest [2].

Location(s) and DNA Sequence

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Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

59.31 minutes 

MG1655: 2751627..2751968
gbrowse_img.php?coord=2750627..2752968&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 2752261..2752602
gbrowse_img.php?coord=2751261..2753602&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

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

Notes

Sequence Features

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Feature type Location Description
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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Notes

Alleles and Phenotypes

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Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ΔsmpA (Keio:JW2598)

deletion

deletion

Sensitivity to

0.5% SDS/1 mM EDTA, rifampicin, cholate [3].

PMID:16738554[4]

Shigen
CGSC10055[5]

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Notes

Genetic Resources

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Resource Resource Type Source Notes/Reference

JW2598

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCCGCTGTAAAACGCTGACTGC

Primer 2:CCGTTACCACTCAGCGCAGGTTT

pheA18::Tn10

Linked marker

CAG12158 = CGSC7421[5]

est. P1 cotransduction: 61% [7]

srlD3131::Tn10

Linked marker

CAG18642 = CGSC7423[5]

est. P1 cotransduction: 1% [7]

Synonyms:zfh-3131::Tn10, zfi-3131::Tn10

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

Notes

Accessions in Other Databases

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Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10952

EchoBASE (EcoliWiki Page)

EchoBASE:EB0945

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2617

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3139

EcoGene (EcoliWiki Page)

EcoGene:EG10952

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:SMPA

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

Notes

Links

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Name URL Comments
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See Help:Links_table for how to enter or edit information in this section of EcoliWiki.

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. ↑ 2.0 2.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  3. ↑ Sklar, JG et al. (2007) Lipoprotein SmpA is a component of the YaeT complex that assembles outer membrane proteins in Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 104 6400-5 PubMed
  4. ↑ Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  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 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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