E. coli is indeed the coolest thing on the planet - Carl Zimmer

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]

Gene Name	aceF (synonyms: ECK0114, b0115, JW0111)^[1]
Product(s)	AceF product, AceF product^[1]^[2]: B0115 product
Description	AceF-S-acetyldihydrolipoate^[2]^[3]
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): aceEF^[2], pdhR-aceEF-lpdA^[2]
Regulation/Activity
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]

Standard name	aceF
Mnemonic
Synonyms	ECK0114, b0115, JW0111^[1]
edit table

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

Notes

Location(s) and DNA Sequence

[back to top]

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	2.71 minutes	MG1655: 125695..127587	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
W3110		W3110: 125695..127587	GBrowse(W3110)	FASTA Dump
edit table

Strain

Map location

Genome coordinates

Genome browsers

Sequence links

MG1655

2.71 minutes

MG1655: 125695..127587
gbrowse_img.php?coord=124695..128587&genome=ecoli&name=MG1655&trackset=0&width=300&.png

EcoCyc

GBrowse(MG1655)

W3110

W3110: 125695..127587
gbrowse_img.php?coord=124695..128587&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

GBrowse(W3110)

FASTA Dump

edit table

See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Notes

Sequence Features

[back to top]

Feature type	Location	Description
edit table

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

Notes

Alleles and Phenotypes

[back to top]

Allele	Nt change(s)	AA change(s)	Reference	Availability
ΔaceF (Keio:JW0111)	deletion	deletion	PMID:16738554^[4]	Shigen CGSC8393^[5]
aceF10				CGSC:5708
aceF300::Tn10				CGSC:70083
ΔaceF733::kan			PMID:16738554^[4]	CGSC:99888
edit table

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

Notes

Genetic Resources

[back to top]

Resource	Resource Type	Source	Notes/Reference
JW0111	Plasmid clone	Shigen	PMID:16769691^[6] Status:Clone OK Primer 1:GCCGCTATCGAAATCAAAGTACC Primer 2:CCCATCACCAGACGGCGAATGTC
leuO3051::Tn10	Linked marker	CAG12095 = CGSC7324^[5]	est. P1 cotransduction: 16% ^[7] Synonyms:zab-3051::Tn10 The start of leuO was reannotated by Riley et al. (2006).
zad-220::Tn10	Linked marker	CAG12025 = CGSC7326^[5]	est. P1 cotransduction: 43% ^[7]
edit table

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

Notes

Accessions in Other Databases

[back to top]

Database	Accession	Notes
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

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

Notes

Links

[back to top]

Name	URL	Comments
edit table

See Help:Links_table for how to enter or edit information in this section of EcoliWiki.

Categories

Product(s)

[back to top]

Nomenclature

Standard name	AceF
Synonyms	pyruvate dehydrogenase, dihydrolipoyltransacetylase component E2^[1], B0115^[2]^[1]
Product description	AceF-lipoate^[2]^[3], AceF-S-acetyldihydrolipoate^[2]^[3]
EC number (for enzymes)	2.3.1.12^[1]
edit table

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

Notes

Function

[back to top]

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(s)	Evidence Code	with/from	Aspect	Notes	Status
	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 12.5 ^[8]	complete
	GO:0045254	pyruvate dehydrogenase complex	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006256	C	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0031405	lipoic acid binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0450	F	Seeded from EcoCyc 12.5 ^[8]	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 12.5 ^[8]	complete
	GO:0008152	metabolic process	GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001078 InterPro:IPR004167	P	Seeded from EcoCyc 12.5 ^[8]	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 12.5 ^[8]	complete
	GO:0016740	transferase activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0808	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005515	protein binding	PMID:15690043^[9]	IPI: Inferred from Physical Interaction	UniProtKB:P04395	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005515	protein binding	PMID:15690043^[9]	IPI: Inferred from Physical Interaction	UniProtKB:P07604	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005515	protein binding	PMID:15690043^[9]	IPI: Inferred from Physical Interaction	UniProtKB:P0ADI0	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005515	protein binding	PMID:15690043^[9]	IPI: Inferred from Physical Interaction	UniProtKB:P0AED9	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005515	protein binding	PMID:15690043^[9]	IPI: Inferred from Physical Interaction	UniProtKB:P24230	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005515	protein binding	PMID:15690043^[9]	IPI: Inferred from Physical Interaction	UniProtKB:P30014	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005515	protein binding	PMID:15690043^[9]	IPI: Inferred from Physical Interaction	UniProtKB:P32053	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005515	protein binding	PMID:15690043^[9]	IPI: Inferred from Physical Interaction	UniProtKB:P67087	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005737	cytoplasm	PMID:16858726^[10]	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc 12.5 ^[8]	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
edit table

Interactions

Partner Type	Partner	Notes	References
edit table

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

Notes

Localization

Compartment	Description	Evidence	Notes
edit table

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

Notes

Structure and Physical Properties

[back to top]

Physical Properties

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
Mol. Wt	66.1 kDa (calc) ^[2]
pI
Extinction coefficient	20970 - 21095 (calc based on 3 Y, 3 W, and 1 C residues)
edit table

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

Domains/Motifs/Modification Sites

Type	Residues	Description	Notes
Domain	2 - 74	Lipoyl-binding 1	UniProt:P06959
Domain	106 - 177	Lipoyl-binding 2	UniProt:P06959
Domain	207 - 278	Lipoyl-binding 3	UniProt:P06959
edit table

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

Structure

Structures	Representative Escherichia coli structure: 1QJO\|A 2-80 of 630 residues (E-value: 5.2e-36) (Percent Identity: 100.00) Representative homolog: 1IYU\|A (Azotobacter vinelandii) 4-78 of 630 residues (E-value: 1.1e-15) (Percent Identity: 55.13) View all other structures.
Models	View models at: EcoliPredict ModBase PSI-PRED Protein Quaternary Structure (PQS) Genomes TO Protein (GTOP)
edit table

Structures

Representative Escherichia coli structure:
1QJO|A
2-80 of 630 residues (E-value: 5.2e-36) (Percent Identity: 100.00)
Representative homolog:
1IYU|A (Azotobacter vinelandii)
4-78 of 630 residues (E-value: 1.1e-15) (Percent Identity: 55.13)
View all other structures.

Models

View models at:

edit table

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

Notes

Gene Product Resources

[back to top]

Resource type	Source	Notes/Reference
edit table

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

Notes

Accessions in Other Databases

[back to top]

Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:ACEF-LIPOATE
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
ModBase (EcoliWiki Page)	ModBase:P06959
edit table

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

Notes

Links

[back to top]

Name	URL	Comments
edit table

See Help:Links_table for how to enter or edit information in this section of EcoliWiki.

Categories

[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.

Transcription and Transcriptional Regulation

[back to top]

Transcription unit(s)
aceEF
pdhR-aceEF-lpdA
edit table

Figure courtesy of RegulonDB

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

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=Genes_unlabeled+DNA_unlabeled&width=400&.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

Allele Name	Mutation	Phenotype	Reference
edit table

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

Expression Studies

Type	Reference	Notes
microarray	GenExpDB:b0115 (EcoliWiki Page)	Summary of data for aceF from multiple microarray studies
microarray	GEO Profiles:b0115 (EcoliWiki Page)	NCBI GEO profiles for aceF
edit table

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

Expression Resources

Resource Name	Resource Type	Description	Source	Notes
edit table

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

Notes

Accessions Related to aceF Expression

[back to top]

Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:EG10025
EchoBASE (EcoliWiki Page)	EchoBASE:EB0024
EcoliGenExpDB (EcoliWiki Page)	GenExpDB:b0115
EcoGene (EcoliWiki Page)	EcoGene:EG10025
edit table

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

Notes

Links

[back to top]

Name	URL	Comments
edit table

See Help:Links_table for how to enter or edit information in this section of EcoliWiki.

Categories

[back to top]

Evolution

[back to top]

Homologs in Other Organisms

[back to top]

Organism	Homologs (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

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

Do-It-Yourself Web Tools

Notes

Families

[back to top]

Database	Accession	Notes
PFAM (EcoliWiki Page)	of PF00364 PFAM:3 of PF00364
edit table

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

Notes

Links

[back to top]

Name	URL	Comments
edit table

See Help:Links_table for how to enter or edit information in this section of EcoliWiki.

References

[back to top]

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

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^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
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 ^3.5 ^3.6 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 Baba T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2: 2006.0008 PubMed EcoliWiki page
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ 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 EcoliWiki page
↑ ^7.0 ^7.1 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).
↑ ^8.00 ^8.01 ^8.02 ^8.03 ^8.04 ^8.05 ^8.06 ^8.07 ^8.08 ^8.09 ^8.10 ^8.11 ^8.12 ^8.13 ^8.14 ^8.15 ^8.16 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^9.0 ^9.1 ^9.2 ^9.3 ^9.4 ^9.5 ^9.6 ^9.7 Butland G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433: 531-7 PubMed EcoliWiki page
↑ Lasserre JP et al. (2006) A complexomic study of Escherichia coli using two-dimensional blue native/SDS polyacrylamide gel electrophoresis. Electrophoresis 27: 3306-21 PubMed EcoliWiki page

Categories

[back to top]

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

aceF:On One Page

From EcoliWiki

Quickview

Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Categories

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Categories

Expression

Overview

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to aceF Expression

Notes

Links

Categories

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

Categories

Views

Personal tools

Navigation

Search

Toolbox