lipA:Gene

From EcoliWiki
Jump to: navigation, search

{{#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 Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

<protect>

Nomenclature

[back to top]


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

Standard name

lipA

Mnemonic

Lipoate

Synonyms

ECK0621, b0628, JW0623, lip[1], lip

</protect>

Notes

Location(s) and DNA Sequence

[back to top]


<protect> 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

14.19 minutes 

MG1655: 659439..658474
<gbrowseImage> name=NC_000913:658474..659439 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 642799..641834
<gbrowseImage> name=NC_012967:641834..642799 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 561234..562199
<gbrowseImage> name=NC_012759:561234..562199 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 660638..659673
<gbrowseImage> name=NC_007779:659673..660638 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 598771..597806
<gbrowseImage> name=NC_010473:597806..598771 source=DH10B preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 712031..711066
<gbrowseImage> name=NC_010473:711066..712031 source=DH10B preset=GeneLocation </gbrowseImage>

</protect>

Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

658477

Edman degradation

PMID:10403368[2]
PMID:11106496[3]


<protect></protect>

Notes

Alleles and Phenotypes

[back to top]


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

ΔlipA (Keio:JW0623)

deletion

deletion

PMID:16738554[4]

Shigen
CGSC8730[5]

lipACTRRCPFC94ATRRAPFA

CTRRCPFC94ATRRAPFA

Loss of 1 4Fe-4S cluster binding. Loss of activity

seeded from UniProt:P60716

lipACEEASCPNLAEC68AEEASAPNLAEA

CEEASCPNLAEC68AEEASAPNLAEA

Loss of 1 4Fe-4S cluster binding. Loss of activity

seeded from UniProt:P60716

lipA9

CGSC:7599

lipA2

PMID:8466915[6]

CGSC:8977

ΔlipA767::kan

PMID:16738554[4]

CGSC:101664


<protect></protect>

Notes

Genetic Interactions

[back to top]


<protect>

Interactor Interaction Allele Score(s) Reference(s) Accessions Notes

</protect>

Notes

Genetic Resources

[back to top]


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

Resource Resource Type Source Notes/Reference

JW0623

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCAGTAAACCCATTGTGATGGA

Primer 2:CCCTTAACTTCCATCCCTTTCGC

1G6

Kohara Phage

Genobase

PMID:3038334[8]

crcA280::Tn10

Linked marker

CAG12077 = CGSC7347[5]

est. P1 cotransduction: 87% [9]
Synonyms:zbe-280::Tn10

asnB3057::Tn10

Linked marker

CAG18433 = CGSC7349[5]

est. P1 cotransduction: 16% [9]
Synonyms:zbf-3057::Tn10 nnnThe Tn10 in CAG18433 is inserted in the asnB regulatory region, 4 bp before the start of the asnB ORF.

<protect></protect>

Notes

Accessions in Other Databases

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:EG11306

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11306

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001279

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945227

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1283

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002155

Escherichia coli str. K-12 substr. MG1655

<protect></protect>

Notes

Links

[back to top]



<protect>

References

[back to top]


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. Ollagnier-de Choudens, S & Fontecave, M (1999) The lipoate synthase from Escherichia coli is an iron-sulfur protein. FEBS Lett. 453 25-8 PubMed
  3. Miller, JR et al. (2000) Escherichia coli LipA is a lipoyl synthase: in vitro biosynthesis of lipoylated pyruvate dehydrogenase complex from octanoyl-acyl carrier protein. Biochemistry 39 15166-78 PubMed
  4. 4.0 4.1 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. Hayden, MA et al. (1993) Biosynthesis of lipoic acid: characterization of the lipoic acid auxotrophs Escherichia coli W1485-lip2 and JRG33-lip9. Biochemistry 32 3778-82 PubMed
  7. 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
  8. Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed
  9. 9.0 9.1 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).

Categories