napA:Gene

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Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

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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

napA

Mnemonic

NitrAte reductase, Periplasmic

Synonyms

ECK2198, b2206, JW2194, yojC, yojD, yojE[1], yojE

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Notes

Location(s) and DNA Sequence

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<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

49.54 minutes 

MG1655: 2300775..2298289
<gbrowseImage> name=NC_000913:2298289..2300775 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2252742..2250256
<gbrowseImage> name=NC_012967:2250256..2252742 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2184094..2186580
<gbrowseImage> name=NC_012759:2184094..2186580 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2306087..2303601
<gbrowseImage> name=NC_007779:2303601..2306087 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2391763..2389277
<gbrowseImage> name=NC_010473:2389277..2391763 source=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

Coding Start (SO:0000323)

MG1655

2298292

Edman degradation

PMID:10234835[2]


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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

ΔnapA (Keio:JW2194)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC9774[4]

napA722::Tn10

Insertion at 2,299,612 bp in MG1655 (NC_000913)

adapted from Nichols et al.[5]

CAG12098 = CGSC7400[4]

Synonyms: zeg-722, zei-722::Tn10

napA722::Tn10

PMID:2540407[6] PMID:9829956[7]

CGSC:40001

napA3130::Tn10kan

PMID:2540407[6] PMID:9829956[7]

CGSC:40004

ΔnapA759::kan

PMID:16738554[3]

CGSC:102010


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Notes

Genetic Interactions

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

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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

JW2194

Plasmid clone

Shigen

PMID:16769691[8]

Status:Clone OK

Primer 1:GCCAAACTCAGTCGTCGTAGCTT

Primer 2:CCaACCTTCTCCAGTTTGACCGC

19D1

Kohara Phage

Genobase

PMID:3038334[9]

22A6

Kohara Phage

Genobase

PMID:3038334[9]

zbd-3104::Tn10

Linked marker

CAG12021 = CGSC7344[4]

est. P1 cotransduction: % [5]
Synonyms:zbc-3105::Tn10, zbd-3105::Tn10

atoS298::Tn10

Linked marker

CAG12177 gyrA+ = CGSC7525[4]

est. P1 cotransduction: 45% [5]
Synonyms:zeh-298::Tn10, zej-298::Tn10 nnnThe original CAG12177 was NalR. This is a NalS derivative constructed by S. McAteer (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

EcoCyc:EG12067

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12067

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001976

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947093

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1994

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007289

Escherichia coli str. K-12 substr. MG1655

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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. Thomas, G et al. (1999) The periplasmic nitrate reductase from Escherichia coli: a heterodimeric molybdoprotein with a double-arginine signal sequence and an unusual leader peptide cleavage site. FEMS Microbiol. Lett. 174 167-71 PubMed
  3. 3.0 3.1 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
  4. 4.0 4.1 4.2 4.3 CGSC: The Coli Genetics Stock Center
  5. 5.0 5.1 5.2 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).
  6. 6.0 6.1 Singer, M et al. (1989) A collection of strains containing genetically linked alternating antibiotic resistance elements for genetic mapping of Escherichia coli. Microbiol. Rev. 53 1-24 PubMed
  7. 7.0 7.1 Nichols, BP et al. (1998) Sequence analysis of Tn10 insertion sites in a collection of Escherichia coli strains used for genetic mapping and strain construction. J. Bacteriol. 180 6408-11 PubMed
  8. 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
  9. 9.0 9.1 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

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