ccmD: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 |
ccmD |
|---|---|
| Mnemonic |
Cytochrome c maturation |
| Synonyms |
ECK2190, b2198, JW2186, yojM[1], yojM |
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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 |
49.43 minutes |
MG1655: 2293608..2293399 |
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NC_012967: 2245575..2245366 |
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NC_012759: 2179204..2179413 |
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W3110 |
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W3110: 2298920..2298711 |
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DH10B: 2384596..2384387 |
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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 |
|---|---|---|---|---|---|---|---|
|
ccmD(del) (Keio:JW2186) |
deletion |
deletion |
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ccmD::Tn5KAN-2 (FB20686) |
Insertion at nt 94 in Plus orientation |
does not contain pKD46 | |||||
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ccmD::Tn5KAN-2 (FB20687) |
Insertion at nt 94 in Plus orientation |
contains pKD46 | |||||
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ccmD751(del)::kan |
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ccmABCDEFG(del) |
deletion |
Protien Accumulation |
Loss of heme-containing membrane proteins. |
See figure 3 for experimental results. | |||
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ccmABCDEFG(del) |
deletion |
cytochrome accumulation |
Loss of cytochrome c550. |
See figure 4 for experimental results. | |||
|
ccmABCDEFG(del) |
deletion |
cytochrome biogenesis |
Deficient cytochrome biogenesis |
See figure 5 for experimental results. | |||
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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 |
|---|---|---|---|
|
JW2186 |
Plasmid clone |
Status:Clone OK Primer 1:GCCACCCCTGCATTTGCTTCCTG Primer 2:CCTGCAGCCTCCTGCTGTTGCGC | |
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Kohara Phage |
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Kohara Phage |
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|
Linked marker |
est. P1 cotransduction: % [8] | ||
|
Linked marker |
est. P1 cotransduction: 77% [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 |
|---|---|---|
|
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 Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
- ↑ 5.0 5.1 5.2 Thöny-Meyer, L et al. (1995) Escherichia coli genes required for cytochrome c maturation. J. Bacteriol. 177 4321-6 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 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).
