alaS:Expression: Difference between revisions

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{|   id="K49c01bb39272a"  class=" tableEdit MoleculesPerCellTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="K49c01bb39272a"  class=" tableEdit MoleculesPerCellTable"   
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!|Molecule!!Organism or Strain!!Value!!Units!!Experimental Conditions!!Assay used!!Notes!!Reference(s)
!|Molecule!!Organism or Strain!!Value!!Units!!Experimental Conditions!!Assay used!!Notes!!Reference(s)
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Protein
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''E. coli'' K-12 MC4100
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1.83E+03
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molecules/cell
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*Medium:  median data from rich and minimal media
*Temperature (°C):  37
*Doubling time (min): Growth Rate(min): 
*Growth phase: other:
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emPAI
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PMID:18304323
|-
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Protein
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Ecoli K-12
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86.147+/-0.477
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Molecules/cell
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*Medium: 
*Temperature (°C): 
*Doubling time (min): Growth Rate(min):  *
*Growth phase: other:  *
|
|
Single Molecule Fluorescence
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PMID:20671182
|-
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mRNA
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Ecoli K-12
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0.243536122
|
Molecules/cell
|
*Medium: 
*Temperature (°C): 
*Doubling time (min): Growth Rate(min):  *
*Growth phase: other:  *
|
|
by RNA_Seq
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PMID:20671182
|-
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Protein
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''E. coli'' K-12 MG1655
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8493
|
molecules/cell/generation
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*Medium: MOPS Complete 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
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Ribosome Profiling
|
|
PMID: 24766808
|-
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Protein
|
''E. coli'' K-12 MG1655
|
1795
|
molecules/cell/generation
|
*Medium: MOPS Minimal 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
|
PMID: 24766808
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
5773
|
molecules/cell/generation
|
*Medium: MOPS Complete without Methionine 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
|
PMID: 24766808


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!|Transcription unit(s)
!|Transcription unit(s)
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<!--box uid=421aa90e079fa326b6494f812ad13e79.39521.V46ab6bfdb9266-->||{{RegulonDBfig|ECK120000031.jpg|ALAS}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.39521.V46ab6bfdb9266-->||{{RegulonDBfig|ECK120000031.jpg|ECK120000031}}
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===Notes===
===Notes===
{{Expression_transcription_placeholder}}
{{Expression_transcription_placeholder}}
alaS regulates it's own transcription
<ref name='PMID: 6264314'/>


==Translation and Regulation of Translation==
==Translation and Regulation of Translation==
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<protect><gbrowseImage>
<protect><gbrowseImage>
name=NC_000913:2820013..2820053
name=NC_000913:2820013..2820053
source=ecoli
source=MG1655
flip=1
flip=1
type=Gene+DNA_+Protein
type=Gene+DNA_+Protein
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!|Type!!Reference!!Notes
!|Type!!Reference!!Notes
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microarray  
microarray
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[http://genexpdb.ou.edu/index.php?query=b2697 GenExpDB:b2697] ([[EcoliGenExpDB|EcoliWiki Page]])  
[http://genexpdb.ou.edu/index.php?query=b2697 GenExpDB:b2697] ([[EcoliGenExpDB|EcoliWiki Page]])  
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!|Resource Name!!Resource Type!!Description!!Source!!Notes
!|Resource Name!!Resource Type!!Description!!Source!!Notes
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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10034 EcoCyc:EG10034]
EcoCyc:EG10034
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EchoBASE]]
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0033 EchoBASE:EB0033]
EchoBASE:EB0033
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EcoGene]]
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EcoGene:EG10034
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|
[http://ecogene.org/geneinfo.php?eg_id=EG10034 EcoGene:EG10034]
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
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[[RegulonDB]]
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RegulonDB:ECK120000031
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
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[[ASAP]]
|
ASAP:ABE-0008869
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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!|Name!!URL!!Comments
!|Name!!URL!!Comments

Latest revision as of 19:54, 21 July 2015

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

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Overview Transcription Translation Turnover Experimental Links References Suggestions

Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MC4100

1.83E+03

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323[1]

Protein

Ecoli K-12

86.147+/-0.477

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182[2]

mRNA

Ecoli K-12

0.243536122

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182[2]

Protein

E. coli K-12 MG1655

8493

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID:24766808[3]

Protein

E. coli K-12 MG1655

1795

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID:24766808[3]

Protein

E. coli K-12 MG1655

5773

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID:24766808[3]

edit table

Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

alaS

edit table
Figure courtesy of RegulonDB


Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

alaS regulates it's own transcription [4]

Translation and Regulation of Translation

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<gbrowseImage> name=NC_000913:2820013..2820053 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.


Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

</protect>

Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

[back to top]


Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
edit table


Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b2697 (EcoliWiki Page)

NCBI GEO profiles for alaS

microarray

GenExpDB:b2697 (EcoliWiki Page)

Summary of data for alaS from multiple microarray studies

edit table


Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (2819936..2820163) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ10; Well:B11[5]

edit table

<protect>

Notes

Accessions Related to alaS Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:EG10034

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0033

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2697

EcoGene

EcoGene:EG10034

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000031

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008869

Escherichia coli str. K-12 substr. MG1655

edit table


Notes

Links

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References

[back to top]


See Help:References for how to manage references in EcoliWiki.

  1. ↑ Ishihama, Y et al. (2008) Protein abundance profiling of the Escherichia coli cytosol. BMC Genomics 9 102 PubMed
  2. ↑ 2.0 2.1 Taniguchi, Y et al. (2010) Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells. Science 329 533-8 PubMed
  3. ↑ 3.0 3.1 3.2 Li, GW et al. (2014) Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources. Cell 157 624-35 PubMed
  4. ↑ Putney, SD & Schimmel, P (1981) An aminoacyl tRNA synthetase binds to a specific DNA sequence and regulates its gene transcription. Nature 291 632-5 PubMed
  5. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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