Escherichia coli K-12 MG1655
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Working With: Genome: Escherichia coli K-12 MG1655 Version: v3

ABE-0013501 (fumB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0013501 showshow history
Names
fumB JW4083 ECK4115 b4122
Product
anaerobic class I fumarate hydratase (fumarase B)
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 4345680 4347326 1647 549
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR004647 (IPR004647 Fe-S hydro-lyase, tartrate dehydratase beta-type, catalytic domain) Apr 2008
Automated Process Approved IPR000362 (IPR000362 Fumarate lyase family) Apr 2008
Automated Process Approved IPR004646 (IPR004646 Fe-S hydro-lyase, tartrate dehydratase alpha-type, catalytic domain) Apr 2008
Automated Process Approved IPR011167 (IPR011167 Iron-dependent fumarate hydratase) Apr 2008
Automated Process Approved IPR036660 (IPR036660 Fe-S hydro-lyase, tartrate dehydratase beta-type, catalytic domain superfamily) Jul 2018
Automated Process Approved PF05683 (PF05683 Fumarase C-terminus) Jul 2018
Automated Process Approved PF05681 (PF05681 Fumarate hydratase (Fumerase)) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0006099 tricarboxylic acid cycle Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Uncurated GO biological process GO:0009061 anaerobic respiration Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0006091 generation of precursor metabolites and energy GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR011167
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0006113 fermentation Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO molecular function GO:0016836 hydro-lyase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR004647, IPR036660
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0004333 fumarate hydratase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR011167
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000362
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016829 lyase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004647
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name fumB Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW4083 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK4115 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b4122 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product anaerobic class I fumarate hydratase (fumarase B) Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name fumarase B (fumarate hydratase class I), anaerobic isozyme Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name fumarase B= fumarate hydratase Class I; anaerobic isozyme Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family IPR004647 Fe-S hydro-lyase, tartrate dehydratase beta-type, catalytic domain Protein Sequence Similarity - InterPro Domain: IPR004647
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF05683 Fumarase C-terminus Protein Sequence Similarity - PFAM Model Name: PF05683
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF05681 Fumarate hydratase (Fumerase) Protein Sequence Similarity - PFAM Model Name: PF05681
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR036660 Fe-S hydro-lyase, tartrate dehydratase beta-type, catalytic domain superfamily Protein Sequence Similarity - InterPro Domain: IPR036660
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR011167 Iron-dependent fumarate hydratase Protein Sequence Similarity - InterPro Domain: IPR011167
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR000362 Fumarate lyase family Protein Sequence Similarity - InterPro Domain: IPR000362
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR004646 Fe-S hydro-lyase, tartrate dehydratase alpha-type, catalytic domain Protein Sequence Similarity - InterPro Domain: IPR004646
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Automated Process Uncurated EC number 4.2.1.- Published Annotation - Database Name: EC2GO: GO:0016836
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Approved EC number 4.2.1.2 Published Annotation - Swiss-Prot Accession Number: P14407 Feb 2006
Automated Process Uncurated EC number 4.-.-.- Published Annotation - Database Name: EC2GO: GO:0016829
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated MultiFun 1.3.7 (metabolism; energy metabolism, carbon; anaerobic respiration) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.3.5 (metabolism; energy metabolism, carbon; fermentation) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.3.4 (metabolism; energy metabolism, carbon; tricarboxylic acid cycle) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Automated Process Approved codon start 1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0013501 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P14407 Published Annotation - Swiss-Prot Accession Number: P14407 Jan 2005
Automated Process Approved db xref GI:1790564 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG10357 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P14407 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948642 Published Annotation - Entrez Gene Database ID: 948642
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved function enzyme; Energy metabolism, carbon: TCA cycle Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note fumarase B= fumarate hydratase Class I; anaerobic isozyme; GO_process: GO:0006099 - tricarboxylic acid cycle; GO_process: GO:0006113 - fermentation; GO_process: GO:0009061 - anaerobic respiration Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC77083.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Unknown Predicted by PSORTb - PSORTb Final_Score: 2.00
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Person Uncurated subsystem component of in silico model iAF1260 Experimental - PubMed ID: 17593909
Reference: Escherichia coli K-12 MG1655 		Jan 2009
Person Uncurated subsystem component of in silico model iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 2009
Person Uncurated subsystem component of in silico model iMC1010 Experimental - PubMed ID: 15129285
Reference: Escherichia coli K-12 MG1655 		Mar 2009
Automated Process Approved transl table 11 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Gene Ontology
Person Uncurated GO biological process GO:0009061 anaerobic respiration Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Uncurated GO biological process GO:0006099 tricarboxylic acid cycle Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0006091 generation of precursor metabolites and energy GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR011167
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0006113 fermentation Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO molecular function GO:0004333 fumarate hydratase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR011167
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0016836 hydro-lyase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR004647, IPR036660
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000362
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016829 lyase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004647
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Comparative to toptop
Author Approval Details Genome Feature Name Type
Homolog
Person Uncurated Go view Dickeya dadantii 3937 ABF-0016800 fumA CDS
Person Uncurated Go view Pectobacterium atrosepticum SCRI1043 ABL-0061140 fumA CDS
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0000083 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000029 fumA CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0000033 fumA CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0001039 fumA CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000024 fumA CDS
Ortholog
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0004104 fumB CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0000129 fumB CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004415 CDS
Automated Process Uncurated Go view Escherichia coli APEC O1 (APEC) AEG-0004203 fumB CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0004681 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0010053 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081333 fumB CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004792 fumB CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0005388 CDS
Automated Process Uncurated Go view Escherichia coli E2348/69 (EPEC) BCI-0004746 fumB CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0009113 fumB CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0010466 fumB CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0029298 fumB CDS
Automated Process Uncurated Go view Escherichia coli F11 (UPEC) ADQ-0008529 fumB CDS
Automated Process Approved Go view Escherichia coli HS ADR-0009051 fumB CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004733 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003812 fumB CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0004211 fumB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004733 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004842 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004545 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004777 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178951 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004520 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004580 fumB CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0135216 fumB CDS
Person Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004724 fumB CDS
Person Approved Go view Salmonella Choleraesuis SC-B67 ADB-0004919 fumB CDS
Person Approved Go view Salmonella Paratyphi A ATCC 9150 ADA-0004113 fumB CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0114549 fumB CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0085934 fumB CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0103247 fumB CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0265803 CDS
Person Approved Go view Shigella boydii 227 ADV-0004710 fumB CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0004769 fumB CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0074847 fumB CDS
Person Approved Go view Shigella flexneri 301 ABT-0090316 fumB CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0004364 fumB CDS
Person Approved Go view Shigella sonnei 046 ADD-0004668 fumB CDS
Experimental to toptop
SelectSetNameSetDetailsNotes
stringent responsetranscriptional profile of the stringent responseNone
Recombinant heat-shock dataexpression data for recombinant strain under heat shockThese data are from the Harcum laboratory. (Jeremy Glasner)
Suppressor tRNA expressionexperiment comparing transcript levels in cells with and without suppressor tRNA expressionThese data were reported in the paper: Herring and Blattner. 2004. Global transcriptional effects of a suppressor tRNA and the inactivation of the regulator frmR. J. Bacteriol. 186(20):6714-20. Link to Abstract (Jeremy Glasner)
Recombinant E. coli expressionexperiment comparing expression of wild-type E. coli with the same strain harboring a plasmid that expresses protein when induced with IPTG These data were reported in the paper: F. T. Haddadin, S. W. Harcum (2005) Transcriptome profiles for high-cell-density recombinant and wild-type Escherichia coli, Biotechnology and Bioengineering, 90:127-153. Link to Abstract (Jeremy Glasner)
Aerobic shiftAerobic shiftThese data were reported in the paper: Covert MW, Knight EM, Reed JL, Herrgard MJ, Palsson BO. 2004. Integrating high-throughput and computational data elucidates bacterial networks. Nature. 2004 May 6;429(6987):92-6. Link to Abstract (Jeremy Glasner)
CalibratorCalibrated microarray experiments (50 hybridizations)This data was used in the paper: Allen et al., J. Bacteriol. 185(21):6392-9 (Jeremy Glasner)
AffyData1Affymetrix Experiments (data from 41 chip hybridizations)This data was used in the paper: Allen et al., J. Bacteriol. 185(21):6392-9 (Jeremy Glasner)
Context Table to toptop

Listed below are features that lie nearby this feature. Features encoded in multiple intervals may appear more than once in the table. Features that span the origin will have a left endpoint greater than the right endpoint.

Features overlapping the region 4340680 to 4352326
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0013486melRCDScomplement43407204341628Downstream
ABE-0013493melACDSforward43419114343266Downstream
ABE-0013495melBCDSforward43433694344790Downstream
ABE-0285680repeat_regionforward43448154344909Downstream
ABE-0013498yjdFCDScomplement43449294345558Downstream
ABE-0013501fumBCDScomplement43456804347326Matches
ABE-0013503dcuBCDScomplement43474044348744Upstream
ABE-0013507dcuRCDScomplement43493154350034Upstream
ABE-0013509dcuSCDScomplement43500314351662Upstream
ABE-0013513yjdICDSforward43518434352073Upstream
ABE-0013515yjdJCDSforward43520854352357Upstream
Release Notes to toptop
All MG1655 annotations and sequence data are publicly available, and investigators can use these data in publications without contacting the genome curators. This version of the sequence was the source of GenBank record U00096.3. Ongoing annotation updates to that GenBank record are being generated from a collaboration that includes ASAP, EcoGene, the Coli Genetic Stock Center, EcoliHub, EcoCyc, RegulonDB and UniProtKB/Swiss-Prot.