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''rpoB706'' ''dnaA1''
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Growth Phenotype
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''DnaA1'' Mutant is unable to grow at 42.5C, mutation in ''rpoB'' suppresses thermosensitivity allowing the strain to grow at 42.5C.
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PMID:400782
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Experimental Strain: EC8
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Revision as of 23:35, 14 June 2013

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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

Nomenclature

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

Standard name

rpoB

Mnemonic

RNA polymerase

Synonyms

ECK3978, b3987, JW3950, ftsR, groN, nitB, rif, ron, sdgB, stl, stv, tabD[1], mbrD?, tabD, tabG

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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

90.08 minutes 

MG1655: 4179268..4183296
<gbrowseImage> name=NC_000913:4179268..4183296 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4160856..4164884
<gbrowseImage> name=NC_012967:4160856..4164884 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4068948..4072976
<gbrowseImage> name=NC_012759:4068948..4072976 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3455436..3451408
<gbrowseImage> name=AC_000091:3451408..3455436 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4278964..4282992
<gbrowseImage> name=NC_010473:4278964..4282992 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

4179268

Edman degradation

PMID:1095419[2]
PMID:6266829[3]


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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

rpoBE813K

E813K

Disrupts the enzyme's active center

seeded from UniProt:P0A8V2

rpoB352

CGSC:5386

rpoB308

CGSC:5088

rpoB70

CGSC:5697

rpoB302

CGSC:5724

rpoB301

CGSC:5967

rpoB79

CGSC:6644

rpoB180

CGSC:6647

rpoB318

CGSC:6800

rpoB316

CGSC:7059

rpoB324(rifR)

rifampicin resistant

CGSC:7075

rpoB331(rifR)

rifampicin resistant

CGSC:8722

rpoB306

CGSC:9150

rpoB2(ts)

temperature sensitive

PMID:8113195[4]

CGSC:9774

rpoB7(ts, rifR)

"temperature-sensitive, rifampicin resistant"

CGSC:9775

rpoB3(rifR)

rifampicin resistant

CGSC:10384

rpoB0(rifR)

rifampicin resistant

CGSC:10521

rpoB342

CGSC:10832

rpoB303

CGSC:11987

rpoB23(rifR)

rifampicin resistant

CGSC:14556

rpoB307

CGSC:16669

rpoB317

CGSC:17095

rpoB2066

PMID:7009579[5]

CGSC:67259

rpoB2069

PMID:7009579[5]

CGSC:67261

rpoB2067

PMID:7009579[5]

CGSC:67262

rpoB2068

PMID:7009579[5]

CGSC:67265

rpoB*35

Sensitivity to

decreases sensitivity to bicyclomycin

PMID:21183718[6]

fig. 2; the rpoB*35 allele is described in [7]

rpoB361 ridB1

Dependence

Mutant is dependent on rifampicin. with the condition its grown below 42C in rich medium.

PMID:6757665[8]

strain: PB61

table 3 and figure 1

stv-72

Resistant to

Resistant to Streptovaricin

PMID:4387741[9]

Strain: KY5102

Figure 1.

The paper also describes other alleles with the same phenotype.

mbrD7

Resistant to

Resistance to camphor, other mutants with similar phenotypes are described.

PMID:2176633[10]

PMID:1925019[11]

Table 2 and Table 1

rpoB in strain K100R3

Resistant to

Rfampin resistance

PMID:4879326[12]

Strain: K1100R3

Table 1

rpoB 3445

AA residue affected 507-687

Resistant to

Resistant to rifampicin

PMID:3050121[13]

Several strain were described in table 7

Evidence in table 7

rpoB in strain KY1343

Resistant to

Resistance to Streptolydigin. in vivo.

PMID:4571524[14]

Strains: KY1343, KY1345, KY1360, KY1361, KY1348

Table 2 shows resistance phenotype and other strains with similar mutations.

rpoB in strain PA6075

Resistant to

Resistant to Streptolydigin

PMID:4897821[15]

Strain: PA6075

Figure 1

rpoB706 dnaA1

Growth Phenotype

DnaA1 Mutant is unable to grow at 42.5C, mutation in rpoB suppresses thermosensitivity allowing the strain to grow at 42.5C.

PMID:400782[16]

Experimental Strain: EC8


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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

JW3950

Plasmid clone

Shigen

PMID:16769691[17]

Status:Clone OK

Primer 1:gccGTTTACTCCTATACCGAGAAAAAACGTATTCG

Primer 2:cctTCGTCTTCCAGTTCGATGTTGATACCC

7B7

Kohara Phage

Genobase

PMID:3038334[18]

argE86::Tn10

Linked marker

CAG12185 = CGSC7471[19]

est. P1 cotransduction: 36% [20]

thiC39::Tn10

Linked marker

CAG18500 = CGSC7472[19]

est. P1 cotransduction: 59% [20]
Synonyms:thi-39::Tn10

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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:EG10894

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10894

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948488

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000885

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0887

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013041

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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<protect>

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. ↑ Fujiki, H & Zurek, G (1975) The subunits of DNA-dependent RNA polymerase from E. coli: I. Amino acid analysis and primary structure of the N-terminal regions. FEBS Lett. 55 242-4 PubMed
  3. ↑ Ovchinnikov, YA et al. (1981) The primary structure of Escherichia coli RNA polymerase. Nucleotide sequence of the rpoB gene and amino-acid sequence of the beta-subunit. Eur. J. Biochem. 116 621-9 PubMed
  4. ↑ Kogoma, T (1994) Escherichia coli RNA polymerase mutants that enhance or diminish the SOS response constitutively expressed in the absence of RNase HI activity. J. Bacteriol. 176 1521-3 PubMed
  5. ↑ 5.0 5.1 5.2 5.3 Yanofsky, C & Horn, V (1981) Rifampin resistance mutations that alter the efficiency of transcription termination at the tryptophan operon attenuator. J. Bacteriol. 145 1334-41 PubMed
  6. ↑ Washburn, RS & Gottesman, ME (2011) Transcription termination maintains chromosome integrity. Proc. Natl. Acad. Sci. U.S.A. 108 792-7 PubMed
  7. ↑ (could not retreive XML for PMID:xxxx from NCBI. ) could not retreive XML for PMID:xxxx from NCBI. could not retreive XML for PMID:xxxx from NCBI. could not retreive XML for PMID:xxxx from NCBI. could not retreive XML for PMID:xxxx from NCBI. PubMed
  8. ↑ Dabbs, ER (1982) Three additional loci of rifampicin dependence in Escherichia coli. Mol. Gen. Genet. 187 519-22 PubMed
  9. ↑ Yura, T & Igarashi, K (1968) RNA polymerase mutants of Escherichia coli. I. Mutants resistant to streptovaricin. Proc. Natl. Acad. Sci. U.S.A. 61 1313-9 PubMed
  10. ↑ Trun, NJ & Gottesman, S (1990) On the bacterial cell cycle: Escherichia coli mutants with altered ploidy. Genes Dev. 4 2036-47 PubMed
  11. ↑ Trun, NJ & Gottesman, S () Characterization of Escherichia coli mutants with altered ploidy. Res. Microbiol. 142 195-200 PubMed
  12. ↑ Ezekiel, DH & Hutchins, JE (1968) Mutations affecting RNA polymerase associated with rifampicin resistance in Escherichia coli. Nature 220 276-7 PubMed
  13. ↑ Jin, DJ & Gross, CA (1988) Mapping and sequencing of mutations in the Escherichia coli rpoB gene that lead to rifampicin resistance. J. Mol. Biol. 202 45-58 PubMed
  14. ↑ Iwakura, Y et al. (1973) RNA polymerase mutants of Escherichia coli. Streptolydigin resistance and its relation to rifampicin resistance. Mol. Gen. Genet. 121 181-96 PubMed
  15. ↑ Schleif, R (1969) Isolation and characterization of streptolydigin resistant RNA polymerase. Nature 223 1068-9 PubMed
  16. ↑ Bagdasarian, MM et al. (1977) Suppression of the DnaA phenotype by mutations in the rpoB cistron of ribonucleic acid polymerase in Salmonella typhimurium and Escherichia coli. J. Bacteriol. 130 577-82 PubMed
  17. ↑ 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
  18. ↑ 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
  19. ↑ 19.0 19.1 CGSC: The Coli Genetics Stock Center
  20. ↑ 20.0 20.1 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).

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