lipB:Gene: Difference between revisions

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*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11591 EcoCyc]
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Revision as of 21:09, 26 July 2010

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features 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

lipB

Mnemonic

Lipoate

Synonyms

ECK0623, b0630, JW5089, lip, cde, cde4[1][2]

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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

14.24 minutes 

MG1655: 661501..660860
<gbrowseImage> name=NC_000913:660860..661501 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 644861..644220
<gbrowseImage> name=NC_012967:644220..644861 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 563620..564261
<gbrowseImage> name=NC_012759:563620..564261 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 662700..662059
<gbrowseImage> name=AC_000091:662059..662700 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 600833..600192
<gbrowseImage> name=NC_010473:600192..600833 source=ecoli_DH10B preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 714093..713452
<gbrowseImage> name=NC_010473:713452..714093 source=ecoli_DH10B preset=GeneLocation </gbrowseImage>

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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

ΔlipB (Keio:JW5089)

deletion

deletion

PMID:16738554[3]

Shigen

lipBC169S

C169S

Loss of activity

seeded from UniProt:P60720

lipBC169A

C169A

1% of wild-type activity

seeded from UniProt:P60720

lipBC137A

C137A

No effect on activity

seeded from UniProt:P60720

lipBC147A

C147A

No effect on activity

seeded from UniProt:P60720

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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

JW5089

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCTATCAGGATAAAATTCTTGT

Primer 2:CCAGCGGTAATATATTCGAAGTC

crcA280::Tn10

Linked marker

CAG12077 = CGSC7347[5]

est. P1 cotransduction: 80% [6]
Synonyms:zbe-280::Tn10

asnB3057::Tn10

Linked marker

CAG18433 = CGSC7349[5]

est. P1 cotransduction: 19% [6]
Synonyms:zbf-3057::Tn10 nnnThe Tn10 in CAG18433 is inserted in the asnB regulatory region, 4 bp before the start of the asnB ORF.

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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:EG11591

EchoBASE (EcoliWiki Page)

EchoBASE:EB1549

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0630

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0720

EcoGene (EcoliWiki Page)

EcoGene:EG11591

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:LIPB

CGSC (EcoliWiki Page)

CGSC:555

ASAP (EcoliWikiPage)

ASAP:ABE-0002160


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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. ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 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
  4. ↑ 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
  5. ↑ 5.0 5.1 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).

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