pgl:On One Page

From EcoliWiki
Jump to: navigation, search

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

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

[back to top]


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

<protect>

Standard Name

pgl

Gene Synonym(s)

ybhE, ECK0756, b0767, JW0750, blu[1][2], blu

Product Desc.

6PGLUCONOLACT[2][3]

6-phosphogluconolactonase, pentose phosphate shunt[4]

Product Synonyms(s)

6-phosphogluconolactonase[1], B0767[2][1], Pgl[2][1], YbhE[2][1] , blu, ECK0756, JW0750, ybhE, b0767

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): pgl[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

[back to top]


Overexpression causes filamentous biofilm formation.[4]



Gene

[back to top]


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

Nomenclature

[back to top]


See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

pgl

Mnemonic

PhosphoGluconoLactonase

Synonyms

ybhE, ECK0756, b0767, JW0750, blu[1][2], blu

</protect>

Notes

Location(s) and DNA Sequence

[back to top]


<protect> 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

17.2 minutes 

MG1655: 797809..798804
<gbrowseImage> name=NC_000913:797809..798804 source=MG1655 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 700777..701772
<gbrowseImage> name=NC_012759:700777..701772 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 799008..800003
<gbrowseImage> name=NC_007779:799008..800003 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 851737..852732
<gbrowseImage> name=NC_010473:851737..852732 source=DH10B preset=GeneLocation </gbrowseImage>

</protect>

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

<protect></protect>

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

ΔybhE::kan

deletion

Biolog:respiration

unable to respire b-Methyl-D-glucoside

PMID:16095938

ΔybhE::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938

Δpgl-739::kan

PMID:16738554

CGSC:106288

pgl-1

CGSC:8116

pgl739(del)::FRT

Sensitivity to

Increase sensitivity to UV.

PMID:23224554

Experimental Strain: SMR12050

Parental strain: SMR4562

See Table S1 & S7

<protect></protect>

Notes

Genetic Interactions

[back to top]


<protect>

Interactor Interaction Allele Score(s) Reference(s) Accessions Notes

</protect>

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

Plasmid clone

Shigen

PMID:16769691

Status:

Primer 1:

Primer 2:

10F3

Kohara Phage

Genobase

PMID:3038334

4H7

Kohara Phage

Genobase

PMID:3038334

<protect></protect>

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:G6397

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13231

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002997

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946398

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3020

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002611

Escherichia coli str. K-12 substr. MG1655

<protect></protect>

Notes

Links

[back to top]



Product(s)

[back to top]


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

Nomenclature

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

Standard name

Pgl

Synonyms

6-phosphogluconolactonase[1], B0767[2][1], Pgl[2][1], YbhE[2][1] , blu, ECK0756, JW0750, ybhE, b0767

Product description

6PGLUCONOLACT[2][3]

6-phosphogluconolactonase, pentose phosphate shunt[4]

EC number (for enzymes)

<protect></protect>

Notes

Function

[back to top]


<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status

GO:0005975

carbohydrate metabolic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01605

P

Seeded from EcoCyc (v14.0)

complete

GO:0005975

carbohydrate metabolic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0119

P

Seeded from EcoCyc (v14.0)

complete

GO:0017057

6-phosphogluconolactonase activity

PMID:15576773

IMP: Inferred from Mutant Phenotype

F

complete

GO:0006006

glucose metabolic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01605

P

Seeded from EcoCyc (v14.0)

complete

GO:0017057

6-phosphogluconolactonase activity

PMID:15766779

IDA: Inferred from Direct Assay

F

complete

GO:0006006

glucose metabolic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0313

P

Seeded from EcoCyc (v14.0)

complete

GO:0017057

6-phosphogluconolactonase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01605

F

Seeded from EcoCyc (v14.0)

complete

GO:0017057

6-phosphogluconolactonase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:3.1.1.31

F

Seeded from EcoCyc (v14.0)

complete

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

fdnH

PMID:16606699

Experiment(s):EBI-1137900

Protein

rsuA

PMID:16606699

Experiment(s):EBI-1137900

Protein

prs

PMID:16606699

Experiment(s):EBI-1137900

Protein

nadE

PMID:16606699

Experiment(s):EBI-1137900

Protein

yfdO

PMID:16606699

Experiment(s):EBI-1137900

</protect>

Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes

<protect></protect>

Notes

Structure and Physical Properties

[back to top]


<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc

MKQTVYIASP ESQQIHVWNL NHEGALTLTQ VVDVPGQVQP MVVSPDKRYL YVGVRPEFRV
LAYRIAPDDG ALTFAAESAL PGSPTHISTD HQGQFVFVGS YNAGNVSVTR LEDGLPVGVV
DVVEGLDGCH SANISPDNRT LWVPALKQDR ICLFTVSDDG HLVAQDPAEV TTVEGAGPRH
MVFHPNEQYA YCVNELNSSV DVWELKDPHG NIECVQTLDM MPENFSDTRW AADIHITPDG
RHLYACDRTA SLITVFSVSE DGSVLSKEGF QPTETQPRGF NVDHSGKYLI AAGQKSHHIS
VYEIVGEQGL LHEKGRYAVG QGPMWVVVNA H
Length

331

Mol. Wt

36.305 kDa

pI

5.1 (calculated)

Extinction coefficient

43,890 - 44,515 (calc based on 11 Y, 5 W, and 5 C residues)


Domains/Motifs/Modification Sites

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

Type Residues Description Notes References

Domain

4..328

PF10282 3-carboxy-cis,cis-muconate lactonizing enzyme

PMID:19920124

<motif_map/>

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

Structures

<beststructure> gene=pgl taxon=562,83333 </beststructure>

Models

View models at:

</protect>

Structure figures

<protect>

</protect>

Notes

Gene Product Resources

[back to top]


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

Resource type Source Notes/Reference

<protect></protect>

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

NCBI (Protein) (EcoliWiki Page)

GI:16128735

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946398

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002611

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P52697

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6397

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13231

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946398

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002997

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3020

Escherichia coli str. K-12 substr. MG1655

<protect></protect>

Notes

Links

[back to top]




Expression

[back to top]


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

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 MG1655

2592

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

2076

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

2221

molecules/cell/generation

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

Ribosome Profiling

PMID: 24766808

Notes

Transcription and Transcriptional Regulation

[back to top]


<protect>

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

Transcription unit(s)

pgl

Figure courtesy of RegulonDB

</protect>

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]


<protect><gbrowseImage> name=NC_000913:797789..797829 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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]


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

Allele Name Mutation Phenotype Reference


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

Type Reference Notes

microarray

GEO Profiles:b0767 (EcoliWiki Page)

NCBI GEO profiles for pgl

microarray

GenExpDB:b0767 (EcoliWiki Page)

Summary of data for pgl from multiple microarray studies


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 (797579..797888) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ14; Well:A11[5]

<protect></protect>

Notes

Accessions Related to pgl Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:G6397

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3020

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0767

EcoGene

EcoGene:EG13231

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002997

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002611

Escherichia coli str. K-12 substr. MG1655

<protect></protect>

Notes

Links

[back to top]



Evolution

[back to top]


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

Homologs in Other Organisms

[back to top]


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

Organism Homologs (Statistics) Comments

Anopheles gambiae

  • ENSANGP00000000152 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPBC18E51 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000027381 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

YBHE

From SHIGELLACYC

E. coli O157

YBHE

From ECOO157CYC

<protect></protect>

Notes

Families

[back to top]


<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database Accession Notes

Pfam (EcoliWiki Page)

PF10282 3-carboxy-cis,cis-muconate lactonizing enzyme


</protect> <protect></protect>

Notes

Links

[back to top]



References

[back to top]


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

  1. 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. 4.0 4.1 4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

[back to top]