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

ABE-0008357 (hcaF) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0008357 showshow history
Names
hcaF phdC2 hcaB yfhV hcaA digB hcaA2 ECK2536 JW2523 b2539
Product
putative 3-phenylpropionate/cinnamate dioxygenase subunit beta
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 2670390 2670908 519 173
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR000391 (IPR000391 Ring-hydroxylating dioxygenase beta subunit) Apr 2008
Automated Process Approved IPR032710 (IPR032710 NTF2-like domain superfamily) Jul 2018
Automated Process Approved PF00866 (PF00866 Ring hydroxylating beta subunit) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Uncurated GO biological process GO:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR000391
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO biological process GO:0016052 carbohydrate catabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0006725 cellular aromatic compound metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000391
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0006118 (OBSOLETE) electron transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000391
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000391
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name hcaF Published Annotation - Swiss-Prot Accession Number: Q47140 Aug 2002
Person Approved synonym JW2523 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym hcaA Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved synonym phdC2 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved synonym yfhV Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved synonym hcaB Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym ECK2536 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym digB Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym hcaA2 Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved locus tag b2539 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product putative 3-phenylpropionate/cinnamate dioxygenase subunit beta Published Annotation - EcoCyc Accession Number: M015
Reference: Escherichia coli K-12 MG1655 		Oct 2021
Person Uncurated alternate product name 3-phenylpropionate dioxygenase, beta subunit Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name small terminal subunit of phenylpropionate dioxygenase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Approved alternate product name 3-phenylpropionate dioxygenase, small (beta) subunit Published Annotation - PubMed ID: 16397293 Jan 2006
Protein Family
Automated Process Approved protein family PF00866 Ring hydroxylating beta subunit Protein Sequence Similarity - PFAM Model Name: PF00866
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR032710 NTF2-like domain superfamily Protein Sequence Similarity - InterPro Domain: IPR032710
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR000391 Ring-hydroxylating dioxygenase beta subunit Protein Sequence Similarity - InterPro Domain: IPR000391
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 1.14.12.19 Published Annotation - Swiss-Prot Accession Number: Q47140 Feb 2006
Person Uncurated MultiFun 1.1.1 (metabolism; carbon utilization; carbon compounds) 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 EcoGene:EG13457 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1788889 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:Q47140 Published Annotation - Swiss-Prot Accession Number: Q47140 Jan 2006
Automated Process Approved db xref GeneID:946997 Published Annotation - Entrez Gene Database ID: 946997
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0008357 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function enzyme; Degradation of small molecules: Carbon compounds Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note small terminal subunit of phenylpropionate dioxygenase; GO_process: GO:0016052 - carbohydrate catabolic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC75592.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Cytoplasmic Predicted by PSORTb - PSORTb Final_Score: 8.96
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Person Uncurated subsystem component of in silico model iMC1010 Experimental - PubMed ID: 15129285
Reference: Escherichia coli K-12 MG1655 		Mar 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 iAF1260 Experimental - PubMed ID: 17593909
Reference: Escherichia coli K-12 MG1655 		Jan 2009
Automated Process Approved transl table 11 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Gene Ontology
Automated Process Approved GO biological process GO:0006725 cellular aromatic compound metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000391
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO biological process GO:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR000391
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO biological process GO:0016052 carbohydrate catabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0006118 (OBSOLETE) electron transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000391
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000391
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0004038 hcaF CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0004746 hcaF CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0007720 hcaF CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003787 hcaF CDS
Ortholog
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0004069 hcaF CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0006715 hcaF CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0008680 hcaF CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006677 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006854 hcaF CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0002898 hcaF CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0003379 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0006691 hcaF CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0007754 hcaF CDS
Automated Process Uncurated Go view Escherichia coli E24377A (ETEC) ADO-0007258 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0000885 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0007114 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0005634 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0005109 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0006556 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC4115 (EHEC) BAS-0008610 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0006207 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0006403 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0009687 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0008060 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0006741 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0006659 hcaF CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0008186 hcaF CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0027510 hcaF CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007364 hcaF CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002395 hcaF CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002610 hcaF CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0003044 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0002986 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0002838 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0002874 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002691 hcaF CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133424 hcaF CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0003733 CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0141872 hcaF CDS
Person Approved Go view Shigella boydii 227 ADV-0002826 hcaA2 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0004474 hcaF CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0073908 hcaA2 CDS
Person Approved Go view Shigella flexneri 301 ABT-0088839 hcaA2 CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0002764 hcaA2 CDS
Person Approved Go view Shigella sonnei 046 ADD-0002858 hcaF 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)
Strains to toptop

Strains with mutations in this feature.

Strain NameStrain TypeStrain InformationStrain RequestFeatureIDNameMutation DetailsExperiments Using StrainSubmitter
FB22450mutantTn5 InsertionRequest the StrainABE-0008357hcaFhcaA2::Tn5KAN-I-SceI at position 173 in Minus orientation ,+ pKD460Blattner Laboratory
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 2665390 to 2675908
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0008346csiECDSforward26654352666715Upstream
ABE-0008348hcaTCDScomplement26667072667846Upstream
ABE-0008351hcaRCDScomplement26680062668896Upstream
ABE-0285710iroKCDScomplement26680062668071Upstream
ABE-0008355hcaECDSforward26690322670393Overlaps Upstream
ABE-0008357hcaFCDSforward26703902670908Matches
ABE-0008359hcaCCDSforward26709082671228Overlaps Downstream
ABE-0008361hcaBCDSforward26712252672037Downstream
ABE-0008363hcaDCDSforward26720472673249Downstream
ABE-0008365yphACDSforward26733462673768Downstream
ABE-0285528repeat_regionforward26737762673809Downstream
ABE-0008368yphBCDScomplement26738162674688Downstream
ABE-0008370yphCCDScomplement26747002675761Downstream
ABE-0008373yphDCDScomplement26758272676825Downstream
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.