ftsK:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
Whitley (talk | contribs)
407 edits
Table edited by Whitley via TableEdit
Adding section & Genetic interactions table to Gene pages.
Line 16: Line 16:
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Interactions | Genetic Interactions]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
Line 536: Line 537:
===Notes===
===Notes===
Deletions that leave the membrane segments intact are viable<ref name='PMID: 9721304'/>.  Suppressors of the ''ftsK'' chaining/filamentation phenotype are discussed in Geissler and Margolin (2005)<ref name='PMID:16194242'/>.
Deletions that leave the membrane segments intact are viable<ref name='PMID: 9721304'/>.  Suppressors of the ''ftsK'' chaining/filamentation phenotype are discussed in Geissler and Margolin (2005)<ref name='PMID:16194242'/>.
==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.12339.X4e04bb9e6c34f-->
<!--
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Genetic_interaction_help}}
{|  id="X4e04bb9e6c34f"  class=" tableEdit Genetic_interaction_table dataTable" 
|- {{table_heading_style}}
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=bc145ea147f7e36caf09c1bfeed4ee9d.12339.X4e04bb9e6c34f&page=12339&pagename={{FULLPAGENAMEE}}&type=0&template=Genetic_interaction_table edit table]</span> || || || || || ||
|}
<!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.12339.X4e04bb9e6c34f--></protect>
<!-- Genetic Interacdtions Notes -->
===Notes===


==Genetic Resources==
==Genetic Resources==

Revision as of 16:30, 24 June 2011

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

[back to top]


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

Standard name

ftsK

Mnemonic

filamentation temperature sensitive Filamentation, temperature sensitive

Synonyms

ECK0881, b0890, JW0873, dinH[1]

edit table


Notes

Location(s) and DNA Sequence

[back to top]


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

20.1 minutes 

MG1655: 932447..936436
<gbrowseImage> name=NC_000913:932447..936436 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 950282..954310
<gbrowseImage> name=NC_012967:950282..954310 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 835415..839404
<gbrowseImage> name=NC_012759:835415..839404 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 933646..937635
<gbrowseImage> name=AC_000091:933646..937635 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 986375..990364
<gbrowseImage> name=NC_010473:986375..990364 source=ecoli_DH10B preset=GeneLocation </gbrowseImage>

edit table


Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes
edit table


Notes

Alleles and Phenotypes

[back to top]


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

ΔLC

PMID:15522074[2]

Carries a deletion of FtsK L and FtsK C

ftsKG80A

G80A

In Toe44; loss of function under extreme conditions

seeded from UniProt:P46889

ftsKE58A

E58A

Loss of function

seeded from UniProt:P46889

NC

PMID:15522074[2]

Barre

Deletion of the FtsK Linker

NL hi C

PMID:15522074[2]

Barre

Carries swaps b/t E.coli and H. influenzae FtsK regions

ftsK A

K997A

PMID:15522074[2]

Barre

Carries a single point mutation in the walker A motif of FtsK C

NLC hi

PMID:15522074[2]

Barre

Carries swaps b/t E.coli and H.influenzae FtsK regions

ftsk::cat1

PMID:9721304[3]

Donachie Sheratt

only expresses the NTD due to a Cm resistance cassette at nt 678 of ftsK

ftsk44

missense mutation

G80A

Growth Phenotype

temperature sensitive late stage block in division, but does not affect chromosome replication or segregation

PMID:7592387[4]

PMID:9721304[3]

Donachie

this is the allele from the TOE44 strain listed in this table.

ftsK1::cat

Other

abnormal nucleoid segregation- asymmetrically positioned nucleoids and large anucleate regions

defect in the C-terminus of FtsK

ftsK1::cat ΔmukB

Growth Phenotype

synthetically lethal

PMID:9829960[6]

shown that it must be complemented in trans

ftsK::cat-2

Δ54-2201

PMID:9721304[3]

almost the entire N-terminal membrane-spanning domain is deleted, and the C-terminal fragment is out of frame with the cat gene. Lethal- must be complemented in trans

ftsK::cat-Δ5

Δ54-3651

PMID:9721304[3]

this is a deletion of 90% of ftsK

ftsK3531

missense mutation

Growth Phenotype

same phenotype as ftsK44- temperature sensitive late stage block in division, but does not affect chromosome replication or segregation

PMID:9721304[3]

suppressed by high salt (1% NaCl) in the medium or by insertional inactivation of the dacA gene, encoding PBP5.

ftsK::cat-Δ2 ΔdacA::kan

Cell Shape

  • forms small colonies on plates grows well
  • produces a population of misshapen cells in liquid culture

PMID:9721304[3]

ftsK::cat-Δ5 Δdac::kan

Other

synthetically lethal

PMID:9721304[3]

ftsKC priA2::kan

Growth Phenotype

synthetically lethal

PMID:11459954[7]

ftsK1::cat ΔminB

Growth Phenotype

chains of minicells generated (many of which contained DNA)

PMID:9829960[6]

ftsK100

K997A

ATP mutant

PMID:18363794[8]


edit table


Notes

Deletions that leave the membrane segments intact are viable[9]. Suppressors of the ftsK chaining/filamentation phenotype are discussed in Geissler and Margolin (2005)[10].


Genetic Interactions

[back to top]



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


Notes

Genetic Resources

[back to top]


See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW0873

Plasmid clone

Shigen

PMID:16769691[11]

Status:Clone OK

Primer 1:GCCAGCCAGGAATACATTGAAGA

Primer 2:CCGTCAAACGGCGGTGGGGCCAG

zbh-29::Tn10

Linked marker

CAG18493 = CGSC7353[12]

est. P1 cotransduction: % [13]
Synonyms:zbi-29::Tn10

zca-1230::Tn10

Linked marker

CAG18478 = CGSC7356[12]

est. P1 cotransduction: 61% [13]
Synonyms:zbj-1230::Tn10

W3110::Plac-ftsK

Strain

Depletion Strain[14]

pWL71

Plasmid Clone

Pbad-FtsK(1-202)-GFP

Successfully complements the W3110::Plac-ftsK depletion strain[14]

pWL72

Plasmid Clone

Pbad-FtsK(1-211)-GFP

Successfully complements the W3110::Plac-ftsK depletion strain [14]

pWL73

Plasmid Clone

Pbad-FtsK(1-251)-GFP

Successfully complements the W3110::Plac-ftsK depletion strain [14]

pWL74

Plasmid Clone

Pbad-FtsK(1-644)

Successfully complements the W3110::Plac-ftsK depletion strain [14]

pWL75

Plasmid Clone

Pbad-FtsK(1-1329)

Successfully complements the W3110::Plac-ftsK depletion strain [14]

pWL76

Plasmid Clone

Pbad-FtsK(1-19 and 637-1329)- N-terminal 19 amino acids fused in phase to amino acid residue 637 of FtsK

Cannot complement the W3110::Plac-ftsK depletion strain [14]

pFtsK-PhoA plasmids

Plasmid Clone

This represents multiple plasmids with phoA inserted at various positions[15].

pFtsK-LacZ plasmids

Plasmid Clone

This represents multiple plasmids with lacZ inserted at various positions[15].

pFLAG-FtsK plasmids

Plasmid Clone

This reference describes plasmids with various FtsK truncations N-terminally tagged to FLAG[16].

MA3

Strain

AB1157ftsK

PMID:10523315[17]

GR51

Strain

AB1157xerCftsK

PMID:10523315[17]

GR59

Strain

AB1157ftsK recA56 srl::Tn10

PMID:10523315[17]

FC1

Strain

AB1157, ftsK100 K997A (ATP mutant), CmR

PMID:18363794[8]

FtsK-YFP

Plasmid Clone

  • low-copy expression vectors derived from pSC101
  • Spectinomycin resistance gene

PMID:18363794[8]

FtsKΔγ

Plasmid Clone

FtsK50C deleted from residue 1248

PMID:19854947[18]

edit table


Notes

Accessions in Other Databases

[back to top]


See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:G6464

EchoBASE (EcoliWiki Page)

EchoBASE:EB3016

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0890

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C1027

EcoGene (EcoliWiki Page)

EcoGene:EG13226

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:FTSK

ASAP (EcoliWikiPage)

ASAP:ABE-0003027


edit table


Notes

Links

[back to top]



<protect>

References

[back to top]


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. ↑ 2.0 2.1 2.2 2.3 2.4 Bigot, S et al. (2004) FtsK activities in Xer recombination, DNA mobilization and cell division involve overlapping and separate domains of the protein. Mol. Microbiol. 54 876-86 PubMed
  3. ↑ 3.0 3.1 3.2 3.3 3.4 3.5 3.6 Draper, GC et al. (1998) Only the N-terminal domain of FtsK functions in cell division. J. Bacteriol. 180 4621-7 PubMed
  4. ↑ Begg, KJ et al. (1995) A new Escherichia coli cell division gene, ftsK. J. Bacteriol. 177 6211-22 PubMed
  5. ↑ Diez, AA et al. (1997) A mutation in the ftsK gene of Escherichia coli affects cell-cell separation, stationary-phase survival, stress adaptation, and expression of the gene encoding the stress protein UspA. J. Bacteriol. 179 5878-83 PubMed
  6. ↑ 6.0 6.1 6.2 Yu, XC et al. (1998) Role of the C terminus of FtsK in Escherichia coli chromosome segregation. J. Bacteriol. 180 6424-8 PubMed
  7. ↑ McCool, JD & Sandler, SJ (2001) Effects of mutations involving cell division, recombination, and chromosome dimer resolution on a priA2::kan mutant. Proc. Natl. Acad. Sci. U.S.A. 98 8203-10 PubMed
  8. ↑ 8.0 8.1 8.2 Kennedy, SP et al. (2008) Delayed activation of Xer recombination at dif by FtsK during septum assembly in Escherichia coli. Mol. Microbiol. 68 1018-28 PubMed
  9. ↑ Draper, GC et al. (1998) Only the N-terminal domain of FtsK functions in cell division. J. Bacteriol. 180 4621-7 PubMed
  10. ↑ Geissler, B & Margolin, W (2005) Evidence for functional overlap among multiple bacterial cell division proteins: compensating for the loss of FtsK. Mol. Microbiol. 58 596-612 PubMed
  11. ↑ 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
  12. ↑ 12.0 12.1 CGSC: The Coli Genetics Stock Center
  13. ↑ 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).
  14. ↑ 14.0 14.1 14.2 14.3 14.4 14.5 14.6 Wang, L & Lutkenhaus, J (1998) FtsK is an essential cell division protein that is localized to the septum and induced as part of the SOS response. Mol. Microbiol. 29 731-40 PubMed
  15. ↑ 15.0 15.1 Dorazi, R & Dewar, SJ (2000) Membrane topology of the N-terminus of the Escherichia coli FtsK division protein. FEBS Lett. 478 13-8 PubMed
  16. ↑ Barre, FX et al. (2000) FtsK functions in the processing of a Holliday junction intermediate during bacterial chromosome segregation. Genes Dev. 14 2976-88 PubMed
  17. ↑ 17.0 17.1 17.2 Recchia, GD et al. (1999) FtsK-dependent and -independent pathways of Xer site-specific recombination. EMBO J. 18 5724-34 PubMed
  18. ↑ Graham, JE et al. (2010) FtsK translocation on DNA stops at XerCD-dif. Nucleic Acids Res. 38 72-81 PubMed

Categories

Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=ftsK:Gene&oldid=1249248"