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Standard Name	fhlA
Gene Synonym(s)	ECK2726, b2731, JW2701, fhl^[1], fhl
Product Desc.	FhlA transcriptional activator^[2]^[3] Formate hydrogen lyase system activator, global regulator^[4]
Product Synonyms(s)	DNA-binding transcriptional activator^[1], Fhl^[2]^[1], B2731^[2]^[1], FhlA^[2]^[1], formate hydrogen-lyase transcriptional activator for fdhF, hyc and hyp operons^[2]^[1] , ECK2726, fhl, JW2701, b2731
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): hypBCDE-fhlA^[2], hypABCDE-fhlA^[2]
Regulation/Activity
Quick Links
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Notes

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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	fhlA
Mnemonic	Formate hydrogen-lyase
Synonyms	ECK2726, b2731, JW2701, fhl^[1], fhl
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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	61.48 minutes	MG1655: 2852360..2854438 <gbrowseImage> name=NC_000913:2852360..2854438 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2749198..2751276 <gbrowseImage> name=NC_012967:2749198..2751276 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2738172..2740250 <gbrowseImage> name=NC_012759:2738172..2740250 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2852994..2855072 <gbrowseImage> name=NC_007779:2852994..2855072 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2944902..2946980 <gbrowseImage> name=NC_010473:2944902..2946980 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	Comments
ΔfhlA (Keio:JW2701)	deletion	deletion	PMID:16738554	Shigen
fhlA::Tn5KAN-I-SceI (FB20915)	Insertion at nt 1637 in Plus orientation		PMID:15262929	E. coli Genome Project:FB20915	does not contain pKD46
fhlA::Tn5KAN-I-SceI (FB20916)	Insertion at nt 1637 in Plus orientation		PMID:15262929	E. coli Genome Project:FB20916	contains pKD46
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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
JW2701	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTCATATACACCGATGAGTGA Primer 2:CCAATCAATGCCGATTTATCAAT
12F2	Kohara Phage	Genobase	PMID:3038334
25D2	Kohara Phage	Genobase	PMID:3038334
srlD3131::Tn10	Linked marker	CAG18642 = CGSC7423^[5]	est. P1 cotransduction: 36% ^[6] Synonyms:zfh-3131::Tn10, zfi-3131::Tn10
cysI95::Tn10	Linked marker	CAG12173 = CGSC7425^[5]	est. P1 cotransduction: 26% ^[6] Synonyms:cysC95::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:EG10301	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10301	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000295	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947181	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0297	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008971	Escherichia coli str. K-12 substr. MG1655
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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	FhlA
Synonyms	DNA-binding transcriptional activator^[1], Fhl^[2]^[1], B2731^[2]^[1], FhlA^[2]^[1], formate hydrogen-lyase transcriptional activator for fdhF, hyc and hyp operons^[2]^[1] , ECK2726, fhl, JW2701, b2731
Product description	FhlA transcriptional activator^[2]^[3] Formate hydrogen lyase system activator, global regulator^[4]
EC number (for enzymes)
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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
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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
Protein	groL		PMID:16606699	Experiment(s):EBI-1143770
RNA	OxyS RNA	OxyS RNA represses translation of fhlA by encoding a transcriptional activator. This is important for survival against hydrogen peroxide.	PMID:11804582 PMID:9230301
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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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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 MSYTPMSDLG QQGLFDITRT LLQQPDLASL CEALSQLVKR SALADNAAIV LWQAQTQRAS YYASREKDTP IKYEDETVLA HGPVRSILSR PDTLHCSYEE FCETWPQLDA GGLYPKFGHY CLMPLAAEGH IFGGCEFIRY DDRPWSEKEF NRLQTFTQIV SVVTEQIQSR VVNNVDYELL CRERDNFRIL VAITNAVLSR LDMDELVSEV AKEIHYYFDI DDISIVLRSH RKNKLNIYST HYLDKQHPAH EQSEVDEAGT LTERVFKSKE MLLINLHERD DLAPYERMLF DTWGNQIQTL CLLPLMSGDT MLGVLKLAQC EEKVFTTTNL NLLRQIAERV AIAVDNALAY QEIHRLKERL VDENLALTEQ LNNVDSEFGE IIGRSEAMYS VLKQVEMVAQ SDSTVLILGE TGTGKELIAR AIHNLSGRNN RRMVKMNCAA MPAGLLESDL FGHERGAFTG ASAQRIGRFE LADKSSLFLD EVGDMPLELQ PKLLRVLQEQ EFERLGSNKI IQTDVRLIAA TNRDLKKMVA DREFRSDLYY RLNVFPIHLP PLRERPEDIP LLAKAFTFKI ARRLGRNIDS IPAETLRTLS NMEWPGNVRE LENVIERAVL LTRGNVLQLS LPDIVLPEPE TPPAATVVAL EGEDEYQLIV RVLKETNGVV AGPKGAAQRL GLKRTTLLSR MKRLGIDKSA LI
Length	692
Mol. Wt	78.469 kDa
pI	5.4 (calculated)
Extinction coefficient	55,810 - 56,935 (calc based on 19 Y, 5 W, and 9 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	202..344	PF01590 GAF domain	PMID:19920124
Domain	642..684	PF02954 Bacterial regulatory protein, Fis family	PMID:19920124
Domain	381..548	PF00158 Sigma-54 interaction domain	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=fhlA 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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Resource type	Source	Notes/Reference
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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:16130638	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947181	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008971	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P19323	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10301	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10301	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947181	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000295	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0297	Escherichia coli str. K-12 substr. MG1655
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Notes

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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	30	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	25	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)
hypBCDE-fhlA
hypABCDE-fhlA
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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_000913:2852340..2852380 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:b2731 (EcoliWiki Page)	NCBI GEO profiles for fhlA
microarray	GenExpDB:b2731 (EcoliWiki Page)	Summary of data for fhlA 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 (2852205..2852420) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ03; Well:G7^[7]
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Notes

Accessions Related to fhlA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10301	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0297	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2731
EcoGene	EcoGene:EG10301	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000295	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008971	Escherichia coli str. K-12 substr. MG1655
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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
Apis mellifera	ENSAPMP00000018075 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT1G19050 (score: 1.000; bootstrap: 100%) AT1G74890 (score: 0.581) AT5G24470 (score: 0.061) AT5G02810 (score: 0.052)	From Inparanoid:20070104
Oryza gramene	Q4GZL0 (score: 1.000; bootstrap: 100%) Q9FRY8 (score: 0.455) Q6YVX7 (score: 0.448) Q4GZK9 (score: 0.448) Q7XRI1 (score: 0.361) Q6H468 (score: 0.164) Q9FRZ0 (score: 0.159) Q9FXQ7 (score: 0.157) Q7XKF6 (score: 0.157) Q4GZK6 (score: 0.152) Q942A1 (score: 0.152) Q4GZK7 (score: 0.152) Q9FRZ1 (score: 0.147) Q6K9T0 (score: 0.144) Q4GZK8 (score: 0.144) Q4GZK2 (score: 0.137) Q9FRY9 (score: 0.134) Q9S7U8 (score: 0.134) Q7XQA6 (score: 0.134) Q4JF20 (score: 0.134) Q4GZK5 (score: 0.134) Q8H5N4 (score: 0.122) Q4GZK4 (score: 0.122) Q9ZQW0 (score: 0.117) Q8GVV6 (score: 0.092) Q4GZK3 (score: 0.092) Q8GVV1 (score: 0.055) Q6YZK8 (score: 0.055)	From Inparanoid:20070104
Shigella flexneri	FHLA	From SHIGELLACYC
E. coli O157	FHLA	From ECOO157CYC
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Notes

Families

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

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF01590 GAF domain
Pfam (EcoliWiki Page)	PF02954 Bacterial regulatory protein, Fis family
Pfam (EcoliWiki Page)	PF00158 Sigma-54 interaction domain
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Notes

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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)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 ^2.11 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 CGSC: The Coli Genetics Stock Center
↑ ^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).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

fhlA: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 fhlA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Notes

Families

Notes

Links

References

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