gyrB: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 |
gyrB |
|---|---|
| Mnemonic |
Gyrase |
| Synonyms |
ECK3691, b3699, JW5625, Cou, himB, hisU, nalC, nalD, pcbA, parA, hopA, pcpA[1], acrB, pcpA |
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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 |
83.53 minutes, 83.53 minutes |
MG1655: 3878142..3875728 |
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NC_012967: 3840480..3838066 |
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NC_012759: 3764061..3766475 |
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W3110 |
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W3110: 3760296..3762710 |
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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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Coding Start (SO:0000323) |
3875731 |
Edman degradation |
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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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gyrBD426N |
D426N |
(in nal-24, nal-102, nal-103, nal- 107, nal-108, nal-111, nal-114, en-2 and en-5 mutants; resistant to nalidixic acid and to enoxacin) |
Strain variation; seeded from UniProt:P0AES6 | ||||
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gyrBK447E |
K447E |
(in nal-31, nal-109, nal-115 and nal-120 mutants; resistant to nalidixic acid) |
Strain variation; seeded from UniProt:P0AES6 | ||||
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gyrBW751R |
W751R |
(in B17 resistant mutant) |
Strain variation; seeded from UniProt:P0AES6 | ||||
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gyrBSR759RC |
SR759RC |
(in acriflavine susceptible mutant) |
Strain variation; seeded from UniProt:P0AES6 | ||||
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gyrB41(Const) |
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gyrB226 |
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gyrB225 |
Growth Phenotype |
able to grow on beta-glucosides |
arose as a compensatory mutation in the topA(del) mutant strain DM800 | ||||
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gyrB204 |
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gyrB203(ts) |
temperature sensitive |
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gyrB221(CouR) |
coumermycin resistant |
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gyrB234(ts) |
Cell Shape |
at permissive temperature (30°C), the average cell volume is larger than the gyrB+ parent (LE234) |
Strain LE316 | ||||
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nalD mutation in strain AB1157-81 |
Resistant to |
Mutant is resistant to Nalidixic acid (NAL) |
Strain: AB1157-81 |
Resistance occurs at 37C but sensitive at 30C. Refer to Figure 3 in the Paper for experimental results. | |||
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gyrB234(ts) |
Resistant to |
Resistant to chlorobiocin (50 ug/ml) (at permissive growth temperatures) |
Strain LE316, parental strain LE234 | ||||
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gyrB234(ts) |
Growth Phenotype |
Temperature-sensitive growth, the plating efficiency at 42°C is less than 10-7 that of the gyrB{ parental strain LE234 |
Strain LE316, parental strain is LE234 | ||||
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gyrB234(ts) |
Resistant to |
Coumermycin A1 resistant (at permissive growth temperatures) |
Strain LE316, parental strain LE234 | ||||
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Multicopy gyrB in strain RYC1010 |
Resistant to |
Increased resistance towards coumermycin A1 |
Plasmid pCID549 was used to increase gene dosage of gyrB causing increased resistance toward coumermycin A1. | ||||
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gyrB225 (called gyrB-225 in the paper) |
6 base pair insertion between nt 1134 and 1135[7] |
Insertion of Ala-Arg between residues 378 and 379 |
Sensitivity to |
Increased sensitivity to quinolone |
Figure 2 quinolones tested: oxolinic acid, CHEBI:138856, ciprofloxacin, CHEBI:100241 experimental Strain: SD104-20 parental strain: SD104
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gyrB-225 |
DNA relaxation |
Decreased DNA relaxation by 2 times. |
See table 1. | ||||
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gyrB-225 |
DNA cleavage |
DNA cleavage is reduced in mutant. Figure 5. |
See Figure 5. | ||||
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gyrB-NI741 |
Resistant to |
Resistant to coumermycin at 60 µg/ml. |
From strain NI708. Parental strain: K12 |
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gyrB-NI748 |
Resistant to |
Resistant to coumermycin at four times the regular lethal limit (60 µg/ml). |
From strain NI741 and and CRT46 dnaA |
Used as a source for drug-resistant DNA gyrase. | |||
|
gyrB-NT525 |
Resistant to |
Novobiocin at 600 µg/ml. |
Parental strain: K12 |
Resistance due to drug impermeability. | |||
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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 |
|---|---|---|---|
|
JW5625 |
Plasmid clone |
Status:cloned as old JW Primer 1:GCCTCGAATTCTTATGACTCCTC Primer 2:CCAATATCGATATTCGCCGCTTT | |
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Kohara Phage |
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Kohara Phage |
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zid-501::Tn10 |
Linked marker |
est. P1 cotransduction: 95% [13] | |
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Linked marker |
est. P1 cotransduction: 7% [13] | ||
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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)
- ↑ Adachi, T et al. (1987) DNA sequence of the E. coli gyrB gene: application of a new sequencing strategy. Nucleic Acids Res. 15 771-84 PubMed
- ↑ DiNardo, S et al. (1982) Escherichia coli DNA topoisomerase I mutants have compensatory mutations in DNA gyrase genes. Cell 31 43-51 PubMed
- ↑ 4.0 4.1 4.2 4.3 Orr, E et al. (1979) Isolation and characterisation of a strain carrying a conditional lethal mutation in the cou gene of Escherichia coli K12. Mol. Gen. Genet. 177 103-12 PubMed
- ↑ Hrebenda, J et al. (1985) Mutation affecting resistance of Escherichia coli K12 to nalidixic acid. J. Gen. Microbiol. 131 2285-92 PubMed
- ↑ del Castillo, I et al. (1991) An unusual mechanism for resistance to the antibiotic coumermycin A1. Proc. Natl. Acad. Sci. U.S.A. 88 8860-4 PubMed
- ↑ McEachern, F & Fisher, LM (1989) Regulation of DNA supercoiling in Escherichia coli: genetic basis of a compensatory mutation in DNA gyrase. FEBS Lett. 253 67-70 PubMed
- ↑ 8.0 8.1 8.2 Heddle, JG et al. (2001) gyrB-225, a mutation of DNA gyrase that compensates for topoisomerase I deficiency: investigation of its low activity and quinolone hypersensitivity. J. Mol. Biol. 309 1219-31 PubMed
- ↑ 9.0 9.1 9.2 Gellert, M et al. (1976) Novobiocin and coumermycin inhibit DNA supercoiling catalyzed by DNA gyrase. Proc. Natl. Acad. Sci. U.S.A. 73 4474-8 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
- ↑ 11.0 11.1 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
- ↑ 12.0 12.1 CGSC: The Coli Genetics Stock Center
- ↑ 13.0 13.1 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).
