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On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	fadE
Gene Synonym(s)	ECK0222, b0221, JW5020, yafH, fadF^[1], fadF
Product Desc.	Medium-long-chain fatty acyl-CoA dehydrogenase^[2]
Product Synonyms(s)	acyl coenzyme A dehydrogenase^[1], B0221^[3]^[1], FadE^[3]^[1], YafH^[3]^[1], FadF^[3]^[1] , ECK0222, fadF, JW5020, yafH, b0221
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): fadE^[3]
Regulation/Activity
Quick Links
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Notes

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FadR regulon. Starvation inducible.^[2]

Gene

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Nomenclature

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

Standard name	fadE
Mnemonic	Fatty acid degradation
Synonyms	ECK0222, b0221, JW5020, yafH, fadF^[1], fadF
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Notes

Location(s) and DNA Sequence

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<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	5.19 minutes	MG1655: 243303..240859 <gbrowseImage> name=NC_000913:240859..243303 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 247874..245430 <gbrowseImage> name=NC_012967:245430..247874 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 240858..243302 <gbrowseImage> name=NC_012759:240858..243302 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 243303..240859 <gbrowseImage> name=NC_007779:240859..243303 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 217407..214963 <gbrowseImage> name=NC_010473:214963..217407 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
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Notes

Alleles and Phenotypes

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

Allele	Nt change(s)	AA change(s)	Reference	Availability
fadE(del) (Keio:JW5020)	deletion	deletion	PMID:16738554	Shigen CGSC11134^[4]
fadE62				CGSC:5327
fadE2				CGSC:15954
fadE739(del)::kan			PMID:16738554	CGSC:100782
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Notes

Genetic Interactions

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

Genetic Resources

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

Resource	Resource Type	Source	Notes/Reference
JW5020	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCATGATTTTGAGTATTCTCGC Primer 2:CCtGCGGCTTCAACTTTCCGCAC
7D5	Kohara Phage	Genobase	PMID:3038334
4A11	Kohara Phage	Genobase	PMID:3038334
yafC502::Tn10	Linked marker	CAG18436 = CGSC7328^[4]	est. P1 cotransduction: 74% ^[5] Synonyms:zae-502::Tn10
proA81::Tn10	Linked marker	CAG18447 = CGSC7330^[4]	est. P1 cotransduction: 50% ^[5]
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Notes

Accessions in Other Databases

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

Database	Accession	Notes
EcoCyc	EcoCyc:G6105	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13145	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002725	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:949007	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2939	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000743	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

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

Standard name	FadE
Synonyms	acyl coenzyme A dehydrogenase^[1], B0221^[3]^[1], FadE^[3]^[1], YafH^[3]^[1], FadF^[3]^[1] , ECK0222, fadF, JW5020, yafH, b0221
Product description	Medium-long-chain fatty acyl-CoA dehydrogenase^[2]
EC number (for enzymes)	1.3.99.3^[1]
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Notes

Function

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<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:0016021	integral to membrane				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0003995	acyl-CoA dehydrogenase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006091	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003995	acyl-CoA dehydrogenase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006092	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003995	acyl-CoA dehydrogenase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR015396	F	Seeded from EcoCyc (v14.0)	complete
	GO:0006629	lipid metabolic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0443	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006631	fatty acid metabolic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0276	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016491	oxidoreductase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013764	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016491	oxidoreductase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0560	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006090	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009075	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009100	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013786	F	Seeded from EcoCyc (v14.0)	complete
	GO:0033539	fatty acid beta-oxidation using acyl-CoA dehydrogenase	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR015396	P	Seeded from EcoCyc (v14.0)	complete
	GO:0050660	FAD binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013786	F	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006090	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006091	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006092	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009075	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR009100	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013764	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013786	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR015396	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0560	P	Seeded from EcoCyc (v14.0)	complete
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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
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Notes

Localization

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

Compartment	Description	Evidence	Reference/Source	Notes
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Notes

Structure and Physical Properties

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<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 MVRPPTSKGL FVMMILSILA TVVLLGALFY HRVSLFISSL ILLAWTAALG VAGLWSAWVL VPLAIILVPF NFAPMRKSMI SAPVFRGFRK VMPPMSRTEK EAIDAGTTWW EGDLFQGKPD WKKLHNYPQP RLTAEEQAFL DGPVEEACRM ANDFQITHEL ADLPPELWAY LKEHRFFAMI IKKEYGGLEF SAYAQSRVLQ KLSGVSGILA ITVGVPNSLG PGELLQHYGT DEQKDHYLPR LARGQEIPCF ALTSPEAGSD AGAIPDTGIV CMGEWQGQQV LGMRLTWNKR YITLAPIATV LGLAFKLSDP EKLLGGAEDL GITCALIPTT TPGVEIGRRH FPLNVPFQNG PTRGKDVFVP IDYIIGGPKM AGQGWRMLVE CLSVGRGITL PSNSTGGVKS VALATGAYAH IRRQFKISIG KMEGIEEPLA RIAGNAYVMD AAASLITYGI MLGEKPAVLS AIVKYHCTHR GQQSIIDAMD ITGGKGIMLG QSNFLARAYQ GAPIAITVEG ANILTRSMMI FGQGAIRCHP YVLEEMEAAK NNDVNAFDKL LFKHIGHVGS NKVRSFWLGL TRGLTSSTPT GDATKRYYQH LNRLSANLAL LSDVSMAVLG GSLKRRERIS ARLGDILSQL YLASAVLKRY DDEGRNEADL PLVHWGVQDA LYQAEQAMDD LLQNFPNRVV AGLLNVVIFP TGRHYLAPSD KLDHKVAKIL QVPNATRSRI GRGQYLTPSE HNPVGLLEEA LVDVIAADPI HQRICKELGK NLPFTRLDEL AHNALVKGLI DKDEAAILVK AEESRLRSIN VDDFDPEELA TKPVKLPEKV RKVEAA
Length	826
Mol. Wt	90.54 kDa
pI	8.5 (calculated)
Extinction coefficient	98,780 - 99,780 (calc based on 22 Y, 12 W, and 8 C residues)
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Domains/Motifs/Modification Sites

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

Type	Residues	Description	References
Domain	360..508	PF00441 Acyl-CoA dehydrogenase, C-terminal domain	PMID:19920124
Domain	237..297	PF02770 Acyl-CoA dehydrogenase, middle domain	PMID:19920124
Domain	121..233	PF02771 Acyl-CoA dehydrogenase, N-terminal domain	PMID:19920124
Domain	514..792	PF09317 Domain of unknown function (DUF1974)	PMID:19920124
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<motif_map/>

Click the image to view raw output from TMHMM.

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

Structures

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

Models

View models at:

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</protect>

Structure figures

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Notes

Gene Product Resources

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

Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:90111100	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:949007	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000743	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:Q47146	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G6105	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13145	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:949007	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002725	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2939	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Expression

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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

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Notes	Reference(s)
Protein	Ecoli K-12	11.891+/-0.399	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.007774141	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by RNA_Seq	PMID:20671182
Protein	E. coli K-12 MG1655	24	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	113	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	7^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
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Notes

Transcription and Transcriptional Regulation

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

Transcription unit(s)
fadE
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Figure courtesy of RegulonDB

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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

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<protect><gbrowseImage> name=NC_000913:243283..243323 source=MG1655 flip=1 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

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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

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

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b0221 (EcoliWiki Page)	NCBI GEO profiles for fadE
microarray	GenExpDB:b0221 (EcoliWiki Page)	Summary of data for fadE from multiple microarray studies
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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 (243266..243565) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ18; Well:H12^[6]
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Notes

Accessions Related to fadE Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:G6105	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2939	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0221
EcoGene	EcoGene:EG13145	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002725	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000743	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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

Organism	Homologs (Statistics)	Comments
Anopheles gambiae	ENSANGP00000015467 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000032836 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	YAFH	From SHIGELLACYC
E. coli O157	YAFH	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF00441 Acyl-CoA dehydrogenase, C-terminal domain
Pfam (EcoliWiki Page)	PF02770 Acyl-CoA dehydrogenase, middle domain
Pfam (EcoliWiki Page)	PF02771 Acyl-CoA dehydrogenase, N-terminal domain
Superfamily (EcoliWiki Page)	SUPERFAMILY:47203
Panther (EcoliWiki Page)	PTHR10909:SF115
Superfamily (EcoliWiki Page)	SUPERFAMILY:56645
Pfam (EcoliWiki Page)	PF09317 Domain of unknown function (DUF1974)
EcoCyc	EcoCyc:G6105	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13145	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002725	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2939	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000743	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 ^1.12 ^1.13 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 ^3.5 ^3.6 ^3.7 ^3.8 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 CGSC: The Coli Genetics Stock Center
↑ ^5.0 ^5.1 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).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

fadE:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to fadE Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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