pdxA:Gene
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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 Interactions | Genetic Resources | Accessions | Links | References | Suggestions |
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Nomenclature
See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.
| Standard name |
pdxA |
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| Mnemonic |
Pyridoxine |
| Synonyms |
ECK0053, b0052, JW0051[1], JW0051 |
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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 |
|---|---|---|---|---|
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MG1655 |
1.13 minutes |
MG1655: 53416..52427 |
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NC_012967: 57611..56622 |
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NC_012759: 52427..53416 |
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W3110 |
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W3110: 53416..52427 |
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DH10B: 53416..52427 |
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Notes
Sequence Features
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
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 |
|---|---|---|---|---|---|---|---|
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pdxA(del) (Keio:JW0051) |
deletion |
deletion |
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pdxA6 |
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pdxA4 |
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pdxA4::Mu |
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pdxA764(del)::kan |
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pdxA(del) |
deletion |
deletion |
Auxotrophies |
deletion causes biosynthesis of pyridoxine to halt inhibiting growth, figure 1 bottom. |
Strain History: NU812 |
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pdxA(del)/PDX1 |
reciprocal transformation |
reciprocal transformation |
Growth Phenotype |
Gene, PDX1, from Cercospora nicotianae incorporated into E. coli will restore pyridoxine biosynthesis that deletion of pdxA halted. Growth rate was severely limited and never reached levels of wild type, Figure 1. |
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pdxA:minimudI lacZ |
Growth Phenotype |
Mutants with lacZ transcriptional fusion showed expression of pdxA incease in proportion to the growth rate, Fig 2. expression leads to PLP biosynthesis. |
Strain: NU1187 | ||||
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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
See Help:Gene_resources for help entering information into the Genetic Resources table.
| Resource | Resource Type | Source | Notes/Reference |
|---|---|---|---|
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JW0051 |
Plasmid clone |
Status:Clone OK Primer 1:GCCGTTAAAACCCAACGTGTTGT Primer 2:CCTTGGGTGTTAACAATCATTTT | |
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Kohara Phage |
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Kohara Phage |
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Kohara Phage |
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Linked marker |
est. P1 cotransduction: 48% [8] | ||
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leuO3051::Tn10 |
Linked marker |
est. P1 cotransduction: 29% [8] | |
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Notes
Accessions in Other Databases
See Help:Gene_accessions for help with entering information into the Gene Accessions table.
| Database | Accession | Notes |
|---|---|---|
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Escherichia coli str. K-12 substr. MG1655 | ||
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Escherichia coli str. K-12 substr. MG1655 | ||
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Escherichia coli str. K-12 substr. MG1655 | ||
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Escherichia coli str. K-12 substr. MG1655 | ||
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Escherichia coli str. K-12 substr. MG1655 | ||
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Escherichia coli str. K-12 substr. MG1655 | ||
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Notes
Links
| Name | URL | Comments |
|---|---|---|
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References
See Help:References for how to manage references in EcoliWiki.
- ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
- ↑ 2.0 2.1 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
- ↑ 3.0 3.1 3.2 CGSC: The Coli Genetics Stock Center
- ↑ 4.0 4.1 Wetzel, DK et al. (2004) Functional complementation between the PDX1 vitamin B6 biosynthetic gene of Cercospora nicotianae and pdxJ of Escherichia coli. FEBS Lett. 564 143-6 PubMed
- ↑ Pease, AJ et al. (2002) Positive growth rate-dependent regulation of the pdxA, ksgA, and pdxB genes of Escherichia coli K-12. J. Bacteriol. 184 1359-69 PubMed
- ↑ 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
- ↑ 7.0 7.1 7.2 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
- ↑ 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).
