EcoliHub logo

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

aceF: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

aceF

Gene Synonym(s)

ECK0114, b0115, JW0111[1]

Product Desc.

AceF-lipoate[2][3], AceF-S-acetyldihydrolipoate[2][3]

Pyruvate dehydrogenase, dihydrolipoamide acetyltransferase E2; acetate requirement[4]

Product Synonyms(s)

pyruvate dehydrogenase, dihydrolipoyltransacetylase component E2[1], B0115[2][1]

Function from GO

Molecular Function

Cellular Component

Biological Process

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): aceEF[2], pdhR-aceEF-lpdA[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(aceF)    Textpresso(aceF)

edit table

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

Notes

[back to top]


Holoenzyme is AceE(24)+AceF(24)+Lpd(12). HT_Cmplx3_Cyt: AceF+Lpd.[4]



Gene

[back to top]


Nomenclature

[back to top]


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

Standard name

aceF

Mnemonic

Acetate

Synonyms

ECK0114, b0115, JW0111[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

2.71 minutes 

MG1655: 125695..127587
gbrowse_img.php?coord=125695..127587&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 128499..130391
gbrowse_img.php?coord=128499..130391&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 125695..127587
gbrowse_img.php?coord=125695..127587&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 99799..101691
gbrowse_img.php?coord=99799..101691&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 125694..127586
gbrowse_img.php?coord=125694..127586&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

ΔaceF (Keio:JW0111)

deletion

deletion

PMID:16738554

Shigen
CGSC8393[5]

aceFH603C

H603C

Abolishes catalytic activity

seeded from UniProt:P06959

aceF10

CGSC:5708

aceF300::Tn10

CGSC:70083

ΔaceF733::kan

PMID:16738554

CGSC:99888


edit table

Notes

Genetic Resources

[back to top]


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

ResourceResource TypeSourceNotes/Reference

JW0111

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCTATCGAAATCAAAGTACC

Primer 2:CCCATCACCAGACGGCGAATGTC

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[5]

est. P1 cotransduction: 16% [6]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

zad-220::Tn10

Linked marker

CAG12025 = CGSC7326[5]

est. P1 cotransduction: 43% [6]

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:EG10025

EchoBASE (EcoliWiki Page)

EchoBASE:EB0024

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0115

EcoGene (EcoliWiki Page)

EcoGene:EG10025

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:ACEF

CGSC (EcoliWiki Page)

CGSC:26530

ASAP (EcoliWikiPage)

ASAP:ABE-0000400


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

AceF

Synonyms

pyruvate dehydrogenase, dihydrolipoyltransacetylase component E2[1], B0115[2][1]

Product description

AceF-lipoate[2][3], AceF-S-acetyldihydrolipoate[2][3]

Pyruvate dehydrogenase, dihydrolipoamide acetyltransferase E2; acetate requirement[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

GO:0004742

dihydrolipoyllysine-residue acetyltransferase activity

GO_REF:0000002
GO_REF:0000003

IEA: Inferred from Electronic Annotation

InterPro:IPR006256
EC:2.3.1.12

F

Seeded from EcoCyc [7]

complete

GO:0045254

pyruvate dehydrogenase complex

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006256

C

Seeded from EcoCyc [7]

complete

GO:0031405

lipoic acid binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0450

F

Seeded from EcoCyc [7]

complete

GO:0005515

protein binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004167

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0006096

glycolysis

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR006256
SP_KW:KW-0324

P

Seeded from EcoCyc [7]

complete

GO:0008152

metabolic process

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001078
InterPro:IPR004167

P

Seeded from EcoCyc [7]

complete

GO:0008415

acyltransferase activity

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR001078
InterPro:IPR004167
SP_KW:KW-0012

F

Seeded from EcoCyc [7]

complete

GO:0016740

transferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc [7]

complete

GO:0005515

protein binding

PMID:15690043

IPI: Inferred from Physical Interaction

UniProtKB:P04395

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005515

protein binding

PMID:15690043

IPI: Inferred from Physical Interaction

UniProtKB:P07604

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005515

protein binding

PMID:15690043

IPI: Inferred from Physical Interaction

UniProtKB:P0ADI0

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005515

protein binding

PMID:15690043

IPI: Inferred from Physical Interaction

UniProtKB:P0AED9

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005515

protein binding

PMID:15690043

IPI: Inferred from Physical Interaction

UniProtKB:P24230

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005515

protein binding

PMID:15690043

IPI: Inferred from Physical Interaction

UniProtKB:P30014

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005515

protein binding

PMID:15690043

IPI: Inferred from Physical Interaction

UniProtKB:P32053

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005515

protein binding

PMID:15690043

IPI: Inferred from Physical Interaction

UniProtKB:P67087

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005737

cytoplasm

PMID:16858726

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc [7]

complete

GO:0016052

carbohydrate catabolic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0006086

acetyl-CoA biosynthetic process from pyruvate

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0009436

glyoxylate catabolic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0009061

anaerobic respiration

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0045254

pyruvate dehydrogenase complex

PMID:3903169

IDA: Inferred from Direct Assay

C

complete

GO:0045254

pyruvate dehydrogenase complex

PMID:327021

IGI: Inferred from Genetic Interaction

C

EcoliWiki:aceE|EcoliWiki:lpd

Missing: with/from

GO:0004742

dihydrolipoyllysine-residue acetyltransferase activity

PMID:12651118

IDA: Inferred from Direct Assay

F

complete

GO:0031405

lipoic acid binding

PMID:12651118

IDA: Inferred from Direct Assay

F

Lysine at aa 425 is lipoylated

complete

Contributes to

GO:0004738

pyruvate dehydrogenase activity

PMID:3903169

IDA: Inferred from Direct Assay

F

complete

GO:0006090

pyruvate metabolic process

PMID:349114

IMP: Inferred from Mutant Phenotype

P

complete

GO:0006086

acetyl-CoA biosynthetic process from pyruvate

PMID:349114

IMP: Inferred from Mutant Phenotype

P

complete

edit table

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

Partner TypePartnerNotesReferencesEvidence

Protein

dcm

PMID:15690043

Experiment(s):EBI-889144, EBI-894157

Protein

rpmF

PMID:16606699

Experiment(s):EBI-1135600

Protein

sdhA

PMID:16606699

Experiment(s):EBI-1135600

Protein

lpdA

PMID:16606699

Experiment(s):EBI-1135600

Protein

rplV

PMID:16606699

Experiment(s):EBI-1135600

Protein

acnB

PMID:16606699

Experiment(s):EBI-1135600

Protein

aceE

PMID:16606699

Experiment(s):EBI-1135600

Protein

rplY

PMID:16606699

Experiment(s):EBI-1135600

Protein

rpmH

PMID:16606699

Experiment(s):EBI-1135600

Protein

mukB

PMID:16606699

Experiment(s):EBI-1135600

edit table

Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes

Cytoplasm

PMID:9298646

EchoLocation:aceF


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 

MAIEIKVPDI GADEVEITEI LVKVGDKVEA EQSLITVEGD KASMEVPSPQ AGIVKEIKVS
VGDKTQTGAL IMIFDSADGA ADAAPAQAEE KKEAAPAAAP AAAAAKDVNV PDIGSDEVEV
TEILVKVGDK VEAEQSLITV EGDKASMEVP APFAGTVKEI KVNVGDKVST GSLIMVFEVA
GEAGAAAPAA KQEAAPAAAP APAAGVKEVN VPDIGGDEVE VTEVMVKVGD KVAAEQSLIT
VEGDKASMEV PAPFAGVVKE LKVNVGDKVK TGSLIMIFEV EGAAPAAAPA KQEAAAPAPA
AKAEAPAAAP AAKAEGKSEF AENDAYVHAT PLIRRLAREF GVNLAKVKGT GRKGRILRED
VQAYVKEAIK RAEAAPAATG GGIPGMLPWP KVDFSKFGEI EEVELGRIQK ISGANLSRNW
VMIPHVTHFD KTDITELEAF RKQQNEEAAK RKLDVKITPV VFIMKAVAAA LEQMPRFNSS
LSEDGQRLTL KKYINIGVAV DTPNGLVVPV FKDVNKKGII ELSRELMTIS KKARDGKLTA
GEMQGGCFTI SSIGGLGTTH FAPIVNAPEV AILGVSKSAM EPVWNGKEFV PRLMLPISLS
FDHRVIDGAD GARFITIINN TLSDIRRLVM
Length

630

Mol. Wt

66.095 kDa

pI

5.0 (calculated)

Extinction coefficient

20,970 - 21,095 (calc based on 3 Y, 3 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

Initiator Methionine

1

Removed

UniProt:P06959


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:E2P-MONOMER

SwissModel (EcoliWiki Page)

SwissModel:P06959

UniProt (EcoliWiki Page)

UniProt:P06959

PFAM (EcoliWiki Page)

of PF00364 PFAM:3 of PF00364

RefSeq (EcoliWiki Page)

RefSeq:NP_414657


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)

aceEF

pdhR-aceEF-lpdA

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=125675..125715&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein&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:b0115 (EcoliWiki Page)

NCBI GEO profiles for aceF

microarray

GenExpDB:b0115 (EcoliWiki Page)

Summary of data for aceF 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 aceF Expression

[back to top]


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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10025

EchoBASE (EcoliWiki Page)

EchoBASE:EB0024

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0115

EcoGene (EcoliWiki Page)

EcoGene:EG10025


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

  • ENSANGP00000023896 (score: 1.000; bootstrap: 85%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000032195 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00026169 (score: 1.000; bootstrap: 80%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00014054 (score: 1.000; bootstrap: 82%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000003451 (score: 1.000; bootstrap: 55%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-030131-2921 (score: 1.000; bootstrap: 64%)
  • ZDB-CDNA-040425-2474 (score: 0.126)
  • ZDB-CDNA-040425-2473 (score: 0.123)
  • ZDB-GENE-040426-1539 (score: 0.123)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0230195 (score: 1.000; bootstrap: 96%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0030612 (score: 1.000; bootstrap: 59%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA18998-PA (score: 1.000; bootstrap: 89%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000010123 (score: 1.000; bootstrap: 63%)

From Inparanoid:20070104

Mus musculus

  • MGI:2385311 (score: 1.000; bootstrap: 64%)
  • MGI:1351627 (score: 0.119)

From Inparanoid:20070104

Oryza gramene

  • Q655Q2 (score: 1.000; bootstrap: 51%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000032890 (score: 1.000; bootstrap: 62%)

From Inparanoid:20070104

Shigella flexneri

ACEF

From SHIGELLACYC

E. coli O157

ACEF

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)

of PF00364 PFAM:3 of PF00364


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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 3.3 3.4 3.5 3.6 3.7 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. ↑ 5.0 5.1 5.2 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).
  7. ↑ 7.0 7.1 7.2 7.3 7.4 7.5 7.6 7.7 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ 8.0 8.1 8.2 8.3 8.4 8.5 8.6 8.7 8.8 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7

Categories

[back to top]


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