fabD:Expression: Difference between revisions

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!|Molecule!!Organism or Strain!!Cellular level!!Units!!Medium!!Temperature °C!!Other (e.g. anaerobic)!!Growth rate!!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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1.02E+04
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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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5.316+/-0.054
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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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0.356297094
|
Molecules/cell
|
*Medium: 
*Temperature (°C): 
*Doubling time (min): Growth Rate(min):  *
*Growth phase: other:  *
|
 
|
by RNA_Seq
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PMID:20671182
|-
|
Protein
|
''E. coli'' K-12 [http://ecoliwiki.net/colipedia/index.php/Category:Strain:EMG2 EMG2]
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500
|
molecules/cell
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*Medium: MOPS glucose minimal
*Temperature (°C): 37
*Doubling time (min):
*Growth phase: Exponential
*OD: OD600 = 0.2 to 0.25 
*other: aerated
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Quantitative protein sequencing
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Spot ID: M48
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PMID: 9298646
|-
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Protein
|
''E. coli'' K-12 MG1655
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14340
|
molecules/cell/generation
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*Medium: MOPS Complete 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
 
|
PMID: 24766808
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
3142
|
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
|
10142
 
|
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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==Translation and Regulation of Translation==
==Translation and Regulation of Translation==
{{BacktoTop}}
{{BacktoTop}}
<protect>{{GBrowseNtermFigure|1148931|1148971|ecoli|MG1655|Gene+DNA_+Protein|400|{{Nterm_closeup}} }}
<protect><gbrowseImage>
name=NC_000913:1148931..1148971
source=MG1655
type=Gene+DNA_+Protein
preset=Nterminus
</gbrowseImage>
{{Nterm_closeup}}
 
<!--Translation_notes--></protect>
<!--Translation_notes--></protect>
===Notes===
===Notes===
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{|   id="F46ab4ab741ce0"  class=" tableEdit Expression_allele_table"   
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!|Allele Name!!Mutation!!Phenotype!!Reference
!|Allele Name!!Mutation!!Phenotype!!Reference
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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=b1092 GenExpDB:b1092] ([[EcoliGenExpDB|EcoliWiki Page]])  
[http://genexpdb.ou.edu/index.php?query=b1092 GenExpDB:b1092] ([[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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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="K46ab4ab88a3b3"  class=" tableEdit Gene_accessions_table"   
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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG11317 EcoCyc:EG11317]
EcoCyc:EG11317
|
|
''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=EB1293 EchoBASE:EB1293]
EchoBASE:EB1293
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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:EG11317
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
|
[[RegulonDB]]
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RegulonDB:ECK120001288
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG11317 EcoGene:EG11317]
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
|
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[[ASAP]]
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ASAP:ABE-0003698
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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

Latest revision as of 19:41, 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

[back to top]


See Help:Cellular levels

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

Protein

E. coli K-12 MC4100

1.02E+04

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

5.316+/-0.054

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182[2]

mRNA

Ecoli K-12

0.356297094

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 EMG2

500

molecules/cell

  • Medium: MOPS glucose minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • Growth phase: Exponential
  • OD: OD600 = 0.2 to 0.25
  • other: aerated

Quantitative protein sequencing

Spot ID: M48

PMID:9298646[3]

Protein

E. coli K-12 MG1655

14340

molecules/cell/generation

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

Ribosome Profiling

PMID:24766808[4]

Protein

E. coli K-12 MG1655

3142

molecules/cell/generation

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

Ribosome Profiling

PMID:24766808[4]

Protein

E. coli K-12 MG1655

10142

molecules/cell/generation

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

Ribosome Profiling

PMID:24766808[4]

edit table

Notes

Transcription and Transcriptional Regulation

[back to top]


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

Transcription unit(s)

plsX-fabHDG

rpmF-plsX-fabHDG

fabDG-acpP

fabHDG

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.

Translation and Regulation of Translation

[back to top]


<gbrowseImage> name=NC_000913:1148931..1148971 source=MG1655 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:b1092 (EcoliWiki Page)

NCBI GEO profiles for fabD

microarray

GenExpDB:b1092 (EcoliWiki Page)

Summary of data for fabD 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
edit table

<protect>

Notes

Accessions Related to fabD Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:EG11317

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1293

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1092

EcoGene

EcoGene:EG11317

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001288

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003698

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. ↑ Link, AJ et al. (1997) Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12. Electrophoresis 18 1259-313 PubMed
  4. ↑ 4.0 4.1 4.2 Li, GW et al. (2014) Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources. Cell 157 624-35 PubMed

Categories

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