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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

References |

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Standard Name	fadH
Gene Synonym(s)	ECK3071, b3081, JW3052, ygjL, G7600^[1]^[2]
Product Desc.	2,4-dienoyl CoA reductase, NADPH-dependent^[3]
Product Synonyms(s)	2,4-dienoyl-CoA reductase, NADH and FMN-linked^[1], B3081^[2]^[1], YgjL^[2]^[1], FadH^[2]^[1] , ECK3071, JW3052, ygjL, b3081
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): fadH^[2]
Regulation/Activity
Quick Links
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Notes

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FadH contains FMN, FAD, and a 4Fe-4S cluster.^[3]

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	fadH
Mnemonic	Fatty acid degradation
Synonyms	ECK3071, b3081, JW3052, ygjL, G7600^[1]^[2]
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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	69.61 minutes	MG1655: 3229687..3231705 <gbrowseImage> name=NC_000913:3229687..3231705 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3164482..3166500 <gbrowseImage> name=NC_012967:3164482..3166500 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3116835..3118853 <gbrowseImage> name=NC_012759:3116835..3118853 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3230321..3232339 <gbrowseImage> name=NC_007779:3230321..3232339 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3327432..3329450 <gbrowseImage> name=NC_010473:3327432..3329450 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
Coding Start (SO:0000323)	MG1655	3229690	Edman degradation	PMID:9346310
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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
ΔfadH (Keio:JW3052)	deletion	deletion	PMID:16738554	Shigen CGSC10330^[4]
ΔfadH771::kan			PMID:16738554	CGSC:100784
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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
JW3052	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAGCTACCCGTCGCTGTTCGC Primer 2:CCAATCTCCAGCGCCAGCCGTGT
17E4	Kohara Phage	Genobase	PMID:3038334
4A1	Kohara Phage	Genobase	PMID:3038334
15B3	Kohara Phage	Genobase	PMID:3038334
aer-3075::Tn10	Linked marker	CAG12152 = CGSC7438^[4]	est. P1 cotransduction: 60% ^[5] Synonyms:zgh-3075::Tn10, zgj-3075::Tn10
sfsB203::Tn10	Linked marker	CAG12072 = CGSC7440^[4]	est. P1 cotransduction: % ^[5] Synonyms:zgj-203::Tn10, zha-203::Tn10
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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:G36	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12723	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002681	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947594	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2582	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010124	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	FadH
Synonyms	2,4-dienoyl-CoA reductase, NADH and FMN-linked^[1], B3081^[2]^[1], YgjL^[2]^[1], FadH^[2]^[1] , ECK3071, JW3052, ygjL, b3081
Product description	2,4-dienoyl CoA reductase, NADPH-dependent^[3]
EC number (for enzymes)	1.3.1.34^[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:0005737	cytoplasm				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013785	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005506	iron ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0408	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013785	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008670	2,4-dienoyl-CoA reductase (NADPH) activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:1.3.1.34	F	Seeded from EcoCyc (v14.0)	complete
	GO:0010181	FMN binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001155	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016491	oxidoreductase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001155	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:0046872	metal ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0479	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051536	iron-sulfur cluster binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0411	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0004	F	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	References	Evidence
Protein	mutH	PMID:16606699	Experiment(s):EBI-1144769
Protein	rpsI	PMID:16606699	Experiment(s):EBI-1144769
Protein	intF	PMID:16606699	Experiment(s):EBI-1144769
Protein	serS	PMID:16606699	Experiment(s):EBI-1144769
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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 MSYPSLFAPL DLGFTTLKNR VLMGSMHTGL EEYPDGAERL AAFYAERARH GVALIVSGGI APDLTGVGME GGAMLNDASQ IPHHRTITEA VHQEGGKIAL QILHTGRYSY QPHLVAPSAL QAPINRFVPH ELSHEEILQL IDNFARCAQL AREAGYDGVE VMGSEGYLIN EFLTLRTNQR SDQWGGDYRN RMRFAVEVVR AVRERVGNDF IIIYRLSMLD LVEDGGTFAE TVELAQAIEA AGATIINTGI GWHEARIPTI ATPVPRGAFS WVTRKLKGHV SLPLVTTNRI NDPQVADDIL SRGDADMVSM ARPFLADAEL LSKAQSGRAD EINTCIGCNQ ACLDQIFVGK VTSCLVNPRA CHETKMPILP AVQKKNLAVV GAGPAGLAFA INAAARGHQV TLFDAHSEIG GQFNIAKQIP GKEEFYETLR YYRRMIEVTG VTLKLNHTVT ADQLQAFDET ILASGIVPRT PPIDGIDHPK VLSYLDVLRD KAPVGNKVAI IGCGGIGFDT AMYLSQPGES TSQNIAGFCN EWGIDSSLQQ AGGLSPQGMQ IPRSPRQIVM LQRKASKPGQ GLGKTTGWIH RTTLLSRGVK MIPGVSYQKI DDDGLHVVIN GETQVLAVDN VVICAGQEPN RALAQPLIDS GKTVHLIGGC DVAMELDARR AIAQGTRLAL EI
Length	672
Mol. Wt	72.678 kDa
pI	6.3 (calculated)
Extinction coefficient	49,850 - 51,100 (calc based on 15 Y, 5 W, and 10 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	Notes	References
Initiator Methionine	1	Removed	UniProt:P42593
Domain	5..331	PF00724 NADH:flavin oxidoreductase / NADH oxidase family		PMID:19920124
Domain	376..545	PF07992 Pyridine nucleotide-disulphide oxidoreductase		PMID:19920124
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<motif_map/>

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

Structures

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

Models

View models at:

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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:16130976	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947594	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010124	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P42593	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G36	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12723	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947594	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002681	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2582	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	E. coli K-12 MG1655	9	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	21	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	0^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)
fadH
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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_000913:3229667..3229707 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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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:b3081 (EcoliWiki Page)	NCBI GEO profiles for fadH
microarray	GenExpDB:b3081 (EcoliWiki Page)	Summary of data for fadH 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
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Notes

Accessions Related to fadH Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:G36	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2582	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3081
EcoGene	EcoGene:EG12723	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002681	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010124	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	ENSANGP00000026415 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00021066 (score: 1.000; bootstrap: 100%) WBGene00017537 (score: 1.000; bootstrap: 100%) WBGene00020394 (score: 0.917) WBGene00017536 (score: 0.650) WBGene00022267 (score: 0.649) WBGene00010148 (score: 0.594) WBGene00022813 (score: 0.268) WBGene00022814 (score: 0.253)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0187532 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPBC23G70c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000009476 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	YGJL	From SHIGELLACYC
E. coli O157	YGJL	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)	PF00724 NADH:flavin oxidoreductase / NADH oxidase family
Superfamily (EcoliWiki Page)	SUPERFAMILY:51395
Superfamily (EcoliWiki Page)	SUPERFAMILY:51971
Panther (EcoliWiki Page)	PTHR22893:SF24
Pfam (EcoliWiki Page)	PF07992 Pyridine nucleotide-disulphide oxidoreductase
EcoCyc	EcoCyc:G36	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12723	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002681	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2582	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010124	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 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 ^2.8 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^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).

fadH: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 fadH Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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