EcoliHub logo

Try the new EcoliHub and let us know what you'd like to see.

apaG:On One Page

From EcoliWiki

Jump to: navigation, search
Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

[back to top]



See Help:Quickview for help with entering information in the Quickview table.

Standard Name

apaG

Gene Synonym(s)

ECK0051, b0050, JW0049, temP[1]

Product Desc.

hypothetical protein[2][3]

Expressed as part of complex ksgA operon, function unknown; Salmonella ortholog involved in Co2+ and Mg2+ efflux; upstream of apaH[4]

Product Synonyms(s)

protein associated with Co2+ and Mg2+ efflux[1], B0050[2][1], ApaG[2][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): apaGH[2], pdxA-rsmA-apaGH[2], pdxA-ksgA-apaG-apaH, rsmA-apaGH[2], ksgA-apaG-apaH, rsmA-apaG-apaH, surA-pdxA-rsmA-apaGH[2], surA-pdxA-ksgA-apaGH

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(apaG)    Textpresso(apaG)

edit table

See Help:Quickview for help with entering information in the Quickview table.

Notes

[back to top]





Gene

[back to top]


Nomenclature

[back to top]


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

Standard name

apaG

Mnemonic

Adenine-tetraPhosphate-adenine

Synonyms

ECK0051, b0050, JW0049, temP[1]

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.

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

1.1 minutes 

MG1655: 51606..51229
gbrowse_img.php?coord=51229..51606&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 55801..55424
gbrowse_img.php?coord=55424..55801&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 51606..51229
gbrowse_img.php?coord=51229..51606&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 51606..51229
gbrowse_img.php?coord=51229..51606&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 51229..51606
gbrowse_img.php?coord=51229..51606&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

edit table

Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature typeLocationDescription
edit table

Notes

Alleles and Phenotypes

[back to top]


See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

ΔapaG (Keio:JW0049)

deletion

deletion

PMID:16738554

Shigen


edit table

Notes

Genetic Resources

[back to top]


See Help:Gene_resources for help entering information into the Genetic Resources table.

ResourceResource TypeSourceNotes/Reference

JW0049

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCATCAATTCGCCCCGAGTGTG

Primer 2:CCATGAATGAGTGTGGGAACGGC

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[5]

est. P1 cotransduction: 51% [6]
Synonyms:car-96::Tn10

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[5]

est. P1 cotransduction: 28% [6]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

edit table

Notes

Accessions in Other Databases

[back to top]


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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10047

EchoBASE (EcoliWiki Page)

EchoBASE:EB0045

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0050

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0063

EcoGene (EcoliWiki Page)

EcoGene:EG10047

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:APAG

CGSC (EcoliWiki Page)

CGSC:30310

ASAP (EcoliWikiPage)

ASAP:ABE-0000169


edit table

Notes

Links

[back to top]



Product(s)

[back to top]



Nomenclature

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

Standard name

ApaG

Synonyms

protein associated with Co2+ and Mg2+ efflux[1], B0050[2][1], ApaG[2][1]

Product description

hypothetical protein[2][3]

Expressed as part of complex ksgA operon, function unknown; Salmonella ortholog involved in Co2+ and Mg2+ efflux; upstream of apaH[4]

EC number (for enzymes)


edit table

Notes

Function

[back to top]


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

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus
edit table

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

Partner TypePartnerNotesReferencesEvidence
edit table

Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes
edit table

Notes

Structure and Physical Properties

[back to top]


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

Sequence

at EcoCyc 

MINSPRVCIQ VQSVYIEAQS SPDNERYVFA YTVTIRNLGR APVQLLGRYW LITNGNGRET
EVQGEGVVGV QPLIAPGEEY QYTSGAIIET PLGTMQGHYE MIDENGVPFS IDIPVFRLAV
PTLIH
Length

125

Mol. Wt

13.866 kDa

pI

4.5 (calculated)

Extinction coefficient

15,930 - 16,055 (calc based on 7 Y, 1 W, and 1 C residues)

edit table


Domains/Motifs/Modification Sites

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

TypeResiduesDescriptionNotesReferences
edit table


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

Structures
Models

View models at:

edit table

Structure figures

Notes

Gene Product Resources

[back to top]


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

Resource typeSourceNotes/Reference
edit table

Notes

Accessions in Other Databases

[back to top]


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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10047-MONOMER

SwissModel (EcoliWiki Page)

SwissModel:P62672

UniProt (EcoliWiki Page)

UniProt:P62672

PFAM (EcoliWiki Page)

PFAM:PF04379

RefSeq (EcoliWiki Page)

RefSeq:NP_414592


edit table

Notes

Links

[back to top]




Expression

[back to top]



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

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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)

apaGH

pdxA-rsmA-apaGH

rsmA-apaGH

surA-pdxA-rsmA-apaGH

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]


gbrowse_img.php?coord=51586..51626&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein+flip&width=400&figure=Nterm&.png
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

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 NameMutationPhenotypeReference
edit table


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

TypeReferenceNotes

microarray

GEO Profiles:b0050 (EcoliWiki Page)

NCBI GEO profiles for apaG

microarray

GenExpDB:b0050 (EcoliWiki Page)

Summary of data for apaG from multiple microarray studies

edit table


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

Resource NameResource TypeDescriptionSourceNotes
edit table

Notes

Accessions Related to apaG Expression

[back to top]


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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10047

EchoBASE (EcoliWiki Page)

EchoBASE:EB0045

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0050

EcoGene (EcoliWiki Page)

EcoGene:EG10047


edit table

Notes

Links

[back to top]



Evolution

[back to top]



Homologs in Other Organisms

[back to top]


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

OrganismHomologs (Statistics)Comments

Anopheles gambiae

  • ENSANGP00000012066 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000013287 (score: 1.000; bootstrap: 83%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000010637 (score: 1.000; bootstrap: 82%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000016033 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-030131-5881 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-670 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0218369 (score: 1.000; bootstrap: 100%)
  • DDB0218063 (score: 0.052)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0037329 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA11446-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000012576 (score: 1.000; bootstrap: 80%)
  • ENSGALP00000010670 (score: 1.000; bootstrap: 81%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000265651 (score: 1.000; bootstrap: 83%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000007964 (score: 1.000; bootstrap: 83%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000012305 (score: 1.000; bootstrap: 83%)

From Inparanoid:20070104

Mus musculus

  • MGI:1929084 (score: 1.000; bootstrap: 83%)

From Inparanoid:20070104

Oryza gramene

  • Q65XS0 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000006059 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000014478 (score: 1.000; bootstrap: 84%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000142251 (score: 1.000; bootstrap: 60%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00012551001 (score: 1.000; bootstrap: 64%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000008233 (score: 1.000; bootstrap: 69%)

From Inparanoid:20070104

Shigella flexneri

APAG

From SHIGELLACYC

E. coli O157

APAG

From ECOO157CYC

edit table


Do-It-Yourself Web Tools

Notes

Families

[back to top]


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

DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF04379


edit table

Notes

Links

[back to top]



References

[back to top]


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

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 2.9 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 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  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

[back to top]


Retrieved from "http://ecoliwiki.net/colipedia/index.php/apaG:On_One_Page"
Personal tools