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Standard Name	fumB
Gene Synonym(s)	ECK4115, b4122, JW4083^[1], JW4083
Product Desc.	fumarase B^[2]^[3]; Component of fumarase B^[2]^[3] Fumarase B, anaerobic^[4]
Product Synonyms(s)	anaerobic class I fumarate hydratase (fumarase B)^[1], B4122^[2]^[1], FumB^[2]^[1] , ECK4115, JW4083, b4122
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): dcuB-fumB^[2], fumB^[2], OP00218
Regulation/Activity
Quick Links
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Notes

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FumB is required for anaerobic D-tartrate utilization and fumB mutants have reduced D-tartrate dehydratase activity (Kim, 2007).^[4]

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	fumB
Mnemonic	Fumarate
Synonyms	ECK4115, b4122, JW4083^[1], JW4083
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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	93.62 minutes, 93.62 minutes	MG1655: 4345349..4343703 <gbrowseImage> name=NC_000913:4343703..4345349 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 4326041..4324395 <gbrowseImage> name=NC_012967:4324395..4326041 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 4282438..4284084 <gbrowseImage> name=NC_012759:4282438..4284084 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 4352004..4350358 <gbrowseImage> name=NC_007779:4350358..4352004 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4445711..4444065 <gbrowseImage> name=NC_010473:4444065..4445711 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
ΔfumB (Keio:JW4083)	deletion	deletion	PMID:16738554	Shigen CGSC10939^[5]
ΔfumB748::kan			PMID:16738554	CGSC:101056
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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
JW4083	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTCAAACAAACCCTTTATCTA Primer 2:CCtTTAGTGCAGTTCGCGCACTG
8H1	Kohara Phage	Genobase	PMID:3038334
5H2	Kohara Phage	Genobase	PMID:3038334
zje-2241::Tn10	Linked marker	CAG18427 = CGSC7481^[5]	est. P1 cotransduction: 20% ^[6]
cadB2231::Tn10	Linked marker	CAG18488 = CGSC7479^[5]	est. P1 cotransduction: 64% ^[6] Synonyms:zjd-2231::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:EG10357	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10357	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000350	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948642	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0352	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013501	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	FumB
Synonyms	anaerobic class I fumarate hydratase (fumarase B)^[1], B4122^[2]^[1], FumB^[2]^[1] , ECK4115, JW4083, b4122
Product description	fumarase B^[2]^[3]; Component of fumarase B^[2]^[3] Fumarase B, anaerobic^[4]
EC number (for enzymes)	4.2.1.2^[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:IPR020557	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004333	fumarate hydratase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011167	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004333	fumarate hydratase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:4.2.1.2	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:0005829	cytosol	PMID:16858726	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
	GO:0006091	generation of precursor metabolites and energy	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011167	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006099	tricarboxylic acid cycle	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0816	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016829	lyase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004646	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016829	lyase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0456	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016836	hydro-lyase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004647	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:0006974	response to DNA damage stimulus	PMID:11967071	IEP: Inferred from Expression Pattern		P		complete
	GO:0042710	biofilm formation	PMID:16385049	IMP: Inferred from Mutant Phenotype		P	fumB(del) has decreased biofilm formation.	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
Protein	Subunits of fumarase B	could be indirect
Protein	aceE		PMID:16606699	Experiment(s):EBI-1147496
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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 MSNKPFIYQA PFPMGKDNTE YYLLTSDYVS VADFDGETIL KVEPEALTLL AQQAFHDASF MLRPAHQKQV AAILHDPEAS ENDKYVALQF LRNSEIAAKG VLPTCQDTGT AIIVGKKGQR VWTGGGDEET LSKGVYNTYI EDNLRYSQNA ALDMYKEVNT GTNLPAQIDL YAVDGDEYKF LCVAKGGGSA NKTYLYQETK ALLTPGKLKN FLVEKMRTLG TAACPPYHIA FVIGGTSAET NLKTVKLASA HYYDELPTEG NEHGQAFRDV QLEQELLEEA QKLGLGAQFG GKYFAHDIRV IRLPRHGASC PVGMGVSCSA DRNIKAKINR EGIWIEKLEH NPGQYIPQEL RQAGEGEAVK VDLNRPMKEI LAQLSQYPVS TRLSLTGTII VGRDIAHAKL KELIDAGKEL PQYIKDHPIY YAGPAKTPAG YPSGSLGPTT AGRMDSYVDL LQSHGGSMIM LAKGNRSQQV TDACHKHGGF YLGSIGGPAA VLAQQSIKHL ECVAYPELGM EAIWKIEVED FPAFILVDDK GNDFFQQIVN KQCANCTK
Length	548
Mol. Wt	60.106 kDa
pI	6.2 (calculated)
Extinction coefficient	55,240 - 56,365 (calc based on 26 Y, 3 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	47..328	PF05681 Fumarate hydratase (Fumerase)	PMID:19920124
Domain	332..541	PF05683 Fumarase C-terminus	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=fumB 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:16131948	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948642	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013501	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P14407	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10357	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10357	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948642	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000350	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0352	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	Reference(s)
Protein	E. coli K-12 MG1655	140	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	86	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	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)
dcuB-fumB
fumB
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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_000913:4345329..4345369 source=MG1655 flip=1 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:b4122 (EcoliWiki Page)	NCBI GEO profiles for fumB
microarray	GenExpDB:b4122 (EcoliWiki Page)	Summary of data for fumB 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 (4344807..4345044) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ02; Well:H11^[7]
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Notes

Accessions Related to fumB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10357	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0352	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b4122
EcoGene	EcoGene:EG10357	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000350	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013501	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
Xenopus tropicalis	ENSXETP00000037952 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	FUMB	From SHIGELLACYC
E. coli O157	FUMB	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
Superfamily (EcoliWiki Page)	SUPERFAMILY:117457
Pfam (EcoliWiki Page)	PF05681 Fumarate hydratase (Fumerase)
Pfam (EcoliWiki Page)	PF05683 Fumarase C-terminus
EcoCyc	EcoCyc:EG10357	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10357	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000350	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0352	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013501	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 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 ^2.9 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 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^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.
↑ ^5.0 ^5.1 ^5.2 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

fumB: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 fumB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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