bamA:Expression: Difference between revisions

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{{Tab|Quickview|yaeT}}{{Tab|Gene|yaeT}}{{Tab|Gene Product(s)|yaeT}}{{Tab On|Expression|yaeT}}{{Tab|Evolution|yaeT}}{{Tab|On One Page|yaeT}}{{TabsBottom}}
{{Tab|Quickview|bamA}}{{Tab|Gene|bamA}}{{Tab|Gene Product(s)|bamA}}{{Tab On|Expression|bamA}}{{Tab|Evolution|bamA}}{{Tab|On One Page|bamA}}{{TabsBottom}}
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===Overview===
===Overview===
{{Expression_overview_placeholder}}
{{Expression_overview_placeholder}}
==Cellular Levels==
{{BacktoTop}}
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|- align='left' bgcolor='#CCCCFF'
!|Molecule!!Organism or Strain!!Value!!Units!!Experimental Conditions!!Assay used!!Notes!!Reference(s)
|-
|
Protein
|
''E. coli'' K-12 [http://ecoliwiki.net/colipedia/index.php/Category:Strain:EMG2 EMG2]
|
180
|
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: M60
|
PMID: 9298646
|-
|
Protein
|
''E. coli'' K-12 [http://ecoliwiki.net/colipedia/index.php/Category:Strain:EMG2 EMG2]
|
80
|
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: M61
|
PMID: 9298646
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
3904
|
molecules/cell/generation
|
*Medium: MOPS Complete 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
|
PMID: 24766808
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
1512
|
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
|
2826
|
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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===Notes===
==Transcription and Transcriptional Regulation==
==Transcription and Transcriptional Regulation==
{{BacktoTop}}
{{BacktoTop}}
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!Transcription unit(s)
!|Transcription unit(s)
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[[:Category:Txn_unit:yaeT-hlpA-lpxD-fabZ-lpxAB-rnhB-dnaE|yaeT-hlpA-lpxD-fabZ-lpxAB-rnhB-dnaE]]  
[[:Category:Txn_unit:yaeT-hlpA-lpxD-fabZ-lpxAB-rnhB-dnaE|yaeT-hlpA-lpxD-fabZ-lpxAB-rnhB-dnaE]]  
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[[:Category:Txn_unit:yaeT|yaeT]]  
[[:Category:Txn_unit:yaeT|yaeT]]  
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<!--box uid=421aa90e079fa326b6494f812ad13e79.32935.J46ab38c74d523-->||{{RegulonDBfig|ECK120002713.jpg|YAET}}
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<!--Transcription_notes--></protect>
<!--Transcription_notes--></protect>
===Notes===
===Notes===
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==Translation and Regulation of Translation==
==Translation and Regulation of Translation==
{{BacktoTop}}
{{BacktoTop}}
<protect>{{GBrowseFigureByCoord|197908|197948|ecoli|MG1655|Genes_unlabeled+DNA_unlabeled|400|{{Nterm_closeup}} }}
<protect><gbrowseImage>
name=NC_000913:197908..197948
source=MG1655
type=Gene+DNA_+Protein
preset=Nterminus
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===Notes===
===Notes===
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<big>'''Expression Studies'''</big>
<big>'''Expression Studies'''</big>
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!|Type!!Reference!!Notes
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microarray
|
[[geoprofiles:b0177|GEO Profiles:b0177]] ([[Gene_Expression_Omnibus_%28GEO%29|EcoliWiki Page]])
|
NCBI GEO profiles for ''yaeT''
|-  
|
|
microarray  
microarray
|
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b0177 EcoliGenExpDB:b0177] ([[EcoliGenExpDB|EcoliWiki Page]])  
[http://genexpdb.ou.edu/index.php?query=b0177 GenExpDB:b0177] ([[EcoliGenExpDB|EcoliWiki Page]])  
|
|
Summary of data for yaeT from multiple microarray studies   
Summary of data for yaeT from multiple microarray studies   
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<big>'''Expression Resources'''</big>
<big>'''Expression Resources'''</big>
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|
GFP Fusion
|
Intergenic region (197801..197953) fused to <i>gfpmut2</i>.
|
[http://www.openbiosystems.com/GeneExpression/Non-Mammalian/Bacteria/EcoliPromoters/ OpenBioSystems][[Category:Genes in OpenBioSystems with Promoter Fusions]]
|
GFP fusion described in Zaslaver, <i>et al.</i><br />Plate:109-AZ11; Well:F4<ref name="PMID: 16862137" />
 
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<protect><!--Expression_experimental_notes--></protect>
<protect><!--Expression_experimental_notes--></protect>
===Notes===
===Notes===




==Accessions Related to ''yaeT'' Expression==
==Accessions Related to ''bamA'' Expression==
{{BacktoTop}}
{{BacktoTop}}
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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=G6093 EcoCyc:G6093] 
EcoCyc:G6093
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB2541 EchoBASE:EB2541] 
EchoBASE:EB2541
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])  
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])  
|
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b0177 EcoliGenExpDB:b0177]
[http://chase.ou.edu/macro/searchlink.php?bnum=b0177 EcoliGenExpDB:b0177]
|
|
   
   
|-
|-
|
[[EcoGene]]
|
EcoGene:EG12676
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120002713
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[ASAP]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG12676 EcoGene:EG12676] 
ASAP:ABE-0000605
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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<protect><!--Accessions_notes--></protect>
<protect><!--Accessions_notes--></protect>
===Notes===
===Notes===
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==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
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===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Txn_unit:yaeT-hlpA-lpxD-fabZ-lpxAB-rnhB-dnaE]]
[[Category:Txn_unit:yaeT-hlpA-lpxD-fabZ-lpxAB-rnhB-dnaE]]
[[Category:Txn_unit:yaeT]]
[[Category:Txn_unit:yaeT]]

Latest revision as of 18:55, 21 July 2015

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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 EMG2

180

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: M60

PMID:9298646[1]

Protein

E. coli K-12 EMG2

80

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: M61

PMID:9298646[1]

Protein

E. coli K-12 MG1655

3904

molecules/cell/generation

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

Ribosome Profiling

PMID:24766808[2]

Protein

E. coli K-12 MG1655

1512

molecules/cell/generation

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

Ribosome Profiling

PMID:24766808[2]

Protein

E. coli K-12 MG1655

2826

molecules/cell/generation

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

Ribosome Profiling

PMID:24766808[2]

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)

yaeT-hlpA-lpxD-fabZ-lpxAB-rnhB-dnaE

yaeT

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

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<gbrowseImage> name=NC_000913:197908..197948 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
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b0177 (EcoliWiki Page)

NCBI GEO profiles for yaeT

microarray

GenExpDB:b0177 (EcoliWiki Page)

Summary of data for yaeT 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 (197801..197953) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ11; Well:F4[3]

edit table

<protect>

Notes

Accessions Related to bamA Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:G6093

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2541

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0177

EcoGene

EcoGene:EG12676

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002713

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000605

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. ↑ 1.0 1.1 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
  2. ↑ 2.0 2.1 2.2 Li, GW et al. (2014) Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources. Cell 157 624-35 PubMed
  3. ↑ 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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