Difference between revisions of "Sandbox"

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* '''Description:''' MreC is a cell shape determining protein and is associated with the [[MreB]] cytoskeleton in ''B. subtilis'' and other rod shaped bacteria.<br/><br/>
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* '''Description:''' write here <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
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|''mreC''
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|''mreD''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''rodB ''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Product''' || cell-shape determining protein
 
|style="background:#ABCDEF;" align="center"| '''Product''' || cell-shape determining protein
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|style="background:#ABCDEF;" align="center"|'''Function''' ||  
 
|style="background:#ABCDEF;" align="center"|'''Function''' ||  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 32 kDa, 6.248  
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 19 kDa, 7.906  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 870 bp, 290 aa  
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 516 bp, 172 aa  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[mreD]]'', ''[[mreB]]''
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[minC]]'', ''[[mreC]]''
 
|-
 
|-
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/mreC_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/mreD_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/mreC_protein.txt Protein sequence]'''
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/mreD_protein.txt Protein sequence]'''
 
|-
 
|-
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|colspan="2" style="background:#FAF8CC;color:#FF0000" align="center" | '''Caution: The sequence for this gene in SubtiList contains errors
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|colspan="2" | '''Genetic context''' <br/> [[Image:mreD_context.gif]]
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|-
 
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|colspan="2" | '''Genetic context''' <br/> [[Image:mreC_context.gif]]
 
 
|-
 
|-
 
|}
 
|}
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=== Basic information ===
 
=== Basic information ===
  
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* '''Coordinates:''' 2859062-2859931
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* '''Coordinates:'''
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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−
''mreC'' is essential under normal conditions [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed].  Depletion of MreC leads to a progressive increase in the width and a decrease in the length of the cell.  This shape defect is consistent with a role for ''mreC'' in cell wall synthesis during elongation and has a similar phenotype to other genes with roles in elongation like ''[[rodA]]'' and the redundant gene pair ''[[pbpA]]'' and ''pbpH'' (also known as ''[[ykuA]]''). Electron microscopy of cells depleted of MreC shows regions of the cell where a thick and irregular cell wall has accumulated [http://www.ncbi.nlm.nih.gov/pubmed/12867458 PubMed] and [http://www.ncbi.nlm.nih.gov/pubmed/16101995 PubMed].  ''mreC'' can be deleted provided that 0.5 M sucrose and 20 mM Magnesium is provided in the media, ''mreC'' is therefore conditionally essentail.  The phenotype of the ''mreC'' deletion in these conditions is one characterised by extreamly fat and bloated cells that tend to grow in clusters [http://www.ncbi.nlm.nih.gov/pubmed/16101995 PubMed].
 
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=== Database entries ===
 
=== Database entries ===
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* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/mreBCD-minCD.html]
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/mreBCD-minCD.html]
  
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10327]
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10328]
  
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+
=== Additional information===
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= Additional information=
 
−
 
 
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===Function===
 
−
 
 
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MreC functions in cell wall synthesis by, together with the MreB cytoskeleton, localizing the cell wall synthetic machinery to the correct part of the cell.  MreC therefore ensures that the cell wall is made in the correct way to maintain the proper shape of the cell.
 
−
 
 
−
===MreC in other organisms===
 
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MreC has been studied in other organisms where it has been shown to be important in cell shape determination.
 
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*''Escherishia coli'' [http://www.ncbi.nlm.nih.gov/pubmed/15612918 PubMed] [http://www.ncbi.nlm.nih.gov/pubmed/17993535 PubMed]
 
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*''Caulobacter cresentus'' [http://www.ncbi.nlm.nih.gov/pubmed/16344480 PubMed] [http://www.ncbi.nlm.nih.gov/pubmed/16344481 PubMed]
 
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*''Rhodobacter spheroides'' [http://www.ncbi.nlm.nih.gov/pubmed/16484180 PubMed]
 
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*''Streptomyces coelicolor'' [http://www.ncbi.nlm.nih.gov/pubmed/10954092 PubMed]
 
  
  
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
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* '''Catalyzed reaction/ biological activity:''' None/ structural protein
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* '''Catalyzed reaction/ biological activity:'''  
  
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* '''Protein family:''' COG1793
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* '''Protein family:'''
  
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* '''Paralogous protein(s):''' None
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* '''Paralogous protein(s):'''
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
  
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* '''Kinetic information:''' None
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* '''Kinetic information:'''
  
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* '''Domains:''' Intracellular N-terminus, transmembrane domain, Coiled coil domain and C-terminal beta-sheet domain.
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* '''Domains:'''  
  
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* '''Modification:''' None
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* '''Modification:'''
  
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* '''Cofactor(s):''' None
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* '''Cofactor(s):'''
  
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
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* '''Interactions:''' Interacts with [[MreD]], and a subset of the PBPs [http://www.ncbi.nlm.nih.gov/pubmed/17427287 PubMed]
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* '''Interactions:'''
  
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* '''Localization:''' GFP-MreC localises to the cell membrane in a helical pattern [http://www.ncbi.nlm.nih.gov/pubmed/16101995 PubMed].
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* '''Localization:'''
  
 
=== Database entries ===
 
=== Database entries ===
  
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* '''Structure:-'''
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* '''Structure:'''
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** 2J5U: MreC from ''Lysteria monocytogenes'' [http://www.ncbi.nlm.nih.gov/pubmed/17427287 PubMed]
 
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** 2QF4: MreC monomer from ''Streptococcus pneumoniae'' [http://www.ncbi.nlm.nih.gov/pubmed/17707860 PubMed]
 
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** 2QF5: MreC dimer from ''Streptococcus pneumoniae'' [http://www.ncbi.nlm.nih.gov/pubmed/17707860 PubMed]
 
  
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* '''Swiss prot entry:''' Q01466
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* '''Swiss prot entry:'''
  
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* '''KEGG entry:''' K03570
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* '''KEGG entry:'''
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
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* '''Operon:''' ''[[mreB]]-[[mreC]]-[[mreD]]-[[minC]]-[[minD]]''
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* '''Operon:'''  
  
 
* '''Sigma factor:''' [[SigH]] [http://www.ncbi.nlm.nih.gov/sites/entrez/8459776 PubMed]
 
* '''Sigma factor:''' [[SigH]] [http://www.ncbi.nlm.nih.gov/sites/entrez/8459776 PubMed]
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=Biological materials =
 
=Biological materials =
  
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* '''Mutant:''' A non-polar inframe deletion strain named 3481 and a xylose dependent conditional mutant named 3461 is avaliable from the [[Errington]] lab [http://www.ncbi.nlm.nih.gov/pubmed/16101995 PubMed].
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* '''Mutant:'''
  
 
* '''Expression vector:'''
 
* '''Expression vector:'''
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* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
  
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* '''GFP fusion:''' A functional N-terminal GFP fusion has been made where the fusion protein is the only copy of the gene in the cell: strain 3417 [http://www.ncbi.nlm.nih.gov/pubmed/16101995 PubMed].
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* '''GFP fusion:'''
  
 
* '''two-hybrid system:'''  
 
* '''two-hybrid system:'''  
  
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* '''Antibody:''' antisera raised in rabit is avaliable from the [[Errington]] lab.
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* '''Antibody:'''
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
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−
[[Jeff Errington]], Newcastle University, UK [http://www.ncl.ac.uk/camb/staff/profile/jeff.errington homepage]
 
  
 
=Your additional remarks=
 
=Your additional remarks=
−
 
−
''mreC'' is an abbreviation of murein region e, gene C
 
  
 
=References=
 
=References=
  
−
# Lee JC & Stewart GC (2003) Essential nature of the ''mreC'' determinant of ''Bacillus subtilis'' ''Journal of Bacteriology'' '''185(15)''': 4490-8. [http://www.ncbi.nlm.nih.gov/pubmed/12867458 PubMed]
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# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
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# Leaver M & Errington J (2005) Roles for MreC and MreD proteins in helical growth of the cylindrical cell wall in ''Bacillus subtilis'' ''Molecular Microbiology'' '''57(5)''': 1196-209 [http://www.ncbi.nlm.nih.gov/pubmed/16101995 PubMed]
 
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# Kruse T, Bork-Jensen J & Gerdes K (2005) The morphogenetic MreBCD proteins of ''Escherichia coli'' form an essential membrane-bound complex ''Molecular Microbiology''  '''55(1)''': 78-89 [http://www.ncbi.nlm.nih.gov/pubmed/15612918 PubMed]
 
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#Bendezú FO & de Boer PA (2008) Conditional lethality, division defects, membrane involution, and endocytosis in ''mre'' and ''mrd'' shape mutants of ''Escherichia coli'' ''Journal of Bacteriology''  '''190(5)''': 1792-811 [http://www.ncbi.nlm.nih.gov/pubmed/17993535 PubMed]
 
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#Divakaruni AV, Loo RR, Xie Y, Loo JA & Gober JW (2005) The cell-shape protein MreC interacts with extracytoplasmic proteins including cell wall assembly complexes in ''Caulobacter crescentus'' ''PNAS'' '''102(51)''': 18602-7 [http://www.ncbi.nlm.nih.gov/pubmed/16344480 PubMed]
 
−
#Dye NA, Pincus Z, Theriot JA, Shapiro L & Gitai Z (2005) Two independent spiral structures control cell shape in Caulobacter ''PNAS'' 102(51): 18608-13.
 
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#Slovak PM, Porter SL & Armitage JP (2006) Differential localization of Mre proteins with PBP2 in ''Rhodobacter sphaeroides'' ''Journal of Bacteriology'' '''188(5)''': 1691-700
 
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#Burger A, Sichler K, Kelemen G, Buttner M & Wohlleben W (2000) Identification and characterization of the ''mre'' gene region of ''Streptomyces coelicolor'' A3(2). Molecular and General Genetics '''263(6)''': 1053-60
 

Revision as of 16:48, 9 March 2009

  • Description: write here

Gene name mreD
Synonyms rodB
Essential no
Product cell-shape determining protein
Function
MW, pI 19 kDa, 7.906
Gene length, protein length 516 bp, 172 aa
Immediate neighbours minC, mreC
Gene sequence (+200bp) Protein sequence
Genetic context
MreD context.gif



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization:

Database entries

  • Structure:
  • Swiss prot entry:
  • KEGG entry:
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation:
  • Regulatory mechanism:
  • Additional information:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

Your additional remarks

References

  1. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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