grpE:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
imported>Wikientrybot
Refreshing information from GenBank record NC_000913
touch
Line 67: Line 67:
*  
*  
****************************************************************************************** -->{{Gene_location_help}}
****************************************************************************************** -->{{Gene_location_help}}
{|   id="A46a9e23446ad6"  class=" tableEdit Gene_location_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="A46a9e23446ad6"  class=" tableEdit Gene_location_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
Line 172: Line 172:
*  
*  
****************************************************************************************** -->{{Gene_sequence_features_help}}
****************************************************************************************** -->{{Gene_sequence_features_help}}
{|   id="Q46a9e23500680"  class=" tableEdit Gene_sequence_features_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Q46a9e23500680"  class=" tableEdit Gene_sequence_features_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
Line 194: Line 194:
*  
*  
****************************************************************************************** -->{{Gene_alleles_help}}
****************************************************************************************** -->{{Gene_alleles_help}}
{| {{Prettytable}} id="Q46a9e23546ac2"  class=" tableEdit Gene_allele_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="Q46a9e23546ac2"  class=" tableEdit Gene_allele_table dataTable"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
Line 540: Line 540:
*  
*  
****************************************************************************************** -->{{Genetic_interaction_help}}
****************************************************************************************** -->{{Genetic_interaction_help}}
{|   id="J4e04bc93eff0b"  class=" tableEdit Genetic_interaction_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="J4e04bc93eff0b"  class=" tableEdit Genetic_interaction_table dataTable"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
Line 561: Line 561:
*  
*  
****************************************************************************************** -->{{Gene_resources_help}}
****************************************************************************************** -->{{Gene_resources_help}}
{|   id="Q46a9e23601859"  class=" tableEdit Gene_resource_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Q46a9e23601859"  class=" tableEdit Gene_resource_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
Line 635: Line 635:
*  
*  
****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{Gene_accessions_help}}
{|   id="C46a9e23698a64"  class=" tableEdit Gene_accessions_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="C46a9e23698a64"  class=" tableEdit Gene_accessions_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10416 ECOCYC:EG10416]
EcoCyc:EG10416
|
|
Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EcoGene]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG10416 EcoGene:EG10416]
EcoGene:EG10416
|
|
Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
Line 659: Line 659:
|
|
Escherichia coli str. K-12 substr. MG1655  
Escherichia coli str. K-12 substr. MG1655  
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120000409
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EchoBASE]]
|
EchoBASE:EB0411
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[ASAP]]
|
ASAP:ABE-0008598
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
Line 678: Line 699:
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|   id="P46a6fedc2fd33"  class=" tableEdit Links_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="P46a6fedc2fd33"  class=" tableEdit Links_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments

Revision as of 07:25, 27 May 2013

{{#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

grpE

Mnemonic

Growth after phage induction

Synonyms

ECK2610, b2614, JW2594[1], JW2594

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

59.23 minutes 

MG1655: 2748730..2748137
<gbrowseImage> name=NC_000913:2748137..2748730 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2672003..2671410
<gbrowseImage> name=NC_012967:2671410..2672003 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2633949..2634542
<gbrowseImage> name=NC_012759:2633949..2634542 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2749364..2748771
<gbrowseImage> name=AC_000091:2748771..2749364 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2840495..2839902
<gbrowseImage> name=NC_010473:2839902..2840495 source=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

grpEV108A

V108A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpEG122D

G122D

Temperature-sensitive phenotype

seeded from UniProt:P09372

grpEL149A

L149A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpEQ155A

Q155A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpEI157A

I157A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpEM159A

M159A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpEM174A

M174A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpER183A

R183A

Loss of ability to interact with dnaK

seeded from UniProt:P09372

grpER186A

R186A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpEM189A

M189A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpEV192A

V192A

Loss of ability to interact with dnaK

seeded from UniProt:P09372

grpER74A

R74A

Great decrease in ability to interact with dnaK

seeded from UniProt:P09372

grpEP151A

P151A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpER73A

R73A

Great decrease in ability to interact with dnaK

seeded from UniProt:P09372

grpEK82A

K82A

Great decrease in ability to interact with dnaK

seeded from UniProt:P09372

grpEF86A

F86A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpER104A

R104A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpEE107A

E107A

No effect in ability to interact with dnaK

seeded from UniProt:P09372

grpE280

PMID:2424889[2]

CGSC:90840


edit table


Notes

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

JW2594

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCAGTAGTAAAGAACAGAAAAC

Primer 2:CCAGCTTTTGCTTTCGCTACAG

E8F2

Kohara Phage

Genobase

PMID:3038334[4]

22D7

Kohara Phage

Genobase

PMID:3038334[4]

pheA18::Tn10

Linked marker

CAG12158 = CGSC7421[5]

est. P1 cotransduction: 69% [6]

srlD3131::Tn10

Linked marker

CAG18642 = CGSC7423[5]

est. P1 cotransduction: % [6]
Synonyms:zfh-3131::Tn10, zfi-3131::Tn10

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

EcoCyc:EG10416

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10416

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947097

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000409

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0411

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008598

Escherichia coli str. K-12 substr. MG1655

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. ↑ Ang, D et al. (1986) Escherichia coli grpE gene codes for heat shock protein B25.3, essential for both lambda DNA replication at all temperatures and host growth at high temperature. J. Bacteriol. 167 25-9 PubMed
  3. ↑ 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
  4. ↑ 4.0 4.1 Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed
  5. ↑ 5.0 5.1 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 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).

Categories

Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=grpE:Gene&oldid=1378356"