ABE-0008355 (hcaE) - Escherichia coli K-12 MG1655

Overview

Context

Seq Similarity

Alignments

Protein Families

Protein Domains

Gene Ontology

Annotations

Comparative

Interactions

Experimental

Strains

Context Table

Links

Release Notes

ASAP ID

ABE-0008355 show

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Names

hcaE hcaA phdC1 yfhU digA hcaA1 ECK2535 JW2522 b2538

Product

putative 3-phenylpropionate/cinnamate dioxygenase subunit alpha

Type

CDS

Location

#	Contig	Strand	Left	Right	Length (b.p.)	Length (a.a.)
1	Chromosome	forward	2669032	2670393	1362	454

Sequence

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Context

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Protein Families to top

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		Family	Annotated
		IPR001663 (IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit)	Apr 2008
		IPR005806 (IPR005806 (DEPRECATED) Rieske [2Fe-2S] region)	Apr 2008
		IPR017941 (IPR017941 Rieske [2Fe-2S] iron-sulphur domain)	Jul 2018
		IPR015879 (IPR015879 Aromatic-ring-hydroxylating dioxygenase, alpha subunit, C-terminal domain)	Jul 2018
		IPR036922 (IPR036922 Rieske [2Fe-2S] iron-sulphur domain superfamily)	Jul 2018
		PF00355 (PF00355 Rieske [2Fe-2S] domain)	Jul 2018
		PF00848 (PF00848 Ring hydroxylating alpha subunit (catalytic domain))	Jul 2018

Gene Ontology to top

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Type	Annotation	Evidence	Annotated
GO biological process	GO:0044237 cellular metabolic process	GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR015879 Reference: Escherichia coli K-12 MG1655	Jul 2018
GO biological process	GO:0016052 carbohydrate catabolic process	Ontology Mapping - Source and Dest Ontology: MultiFun to GO	Mar 2004
GO biological process	GO:0055114 (OBSOLETE) oxidation-reduction process	GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR017941, IPR015879, IPR036922 Reference: Escherichia coli K-12 MG1655	Jul 2018
GO biological process	GO:0006725 cellular aromatic compound metabolic process	GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001663 Reference: Escherichia coli K-12 MG1655	Apr 2008
GO biological process	GO:0006118 (OBSOLETE) electron transport	GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001663 Reference: Escherichia coli K-12 MG1655	Apr 2008
GO molecular function	GO:0016491 oxidoreductase activity	GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005806 Reference: Escherichia coli K-12 MG1655	Apr 2008
GO molecular function	GO:0005506 iron ion binding	GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001663 Reference: Escherichia coli K-12 MG1655	Apr 2008
GO molecular function	GO:0051537 2 iron, 2 sulfur cluster binding	GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001663 Reference: Escherichia coli K-12 MG1655	Apr 2008

Annotations to top

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NCBI Definitions and Examples

Information on MultiFun

	Type	Annotation	Evidence	Annotated
Nomenclature
	name	hcaE	Published Annotation - Swiss-Prot Accession Number: Q47139	Aug 2002
	synonym	ECK2535	Published Annotation - PubMed ID: 16397293	Jan 2006
	synonym	hcaA1	Published Annotation - GenBank Accession Number: U00096 Reference: Escherichia coli MG1655	Oct 1998
	synonym	digA	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	synonym	hcaA	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	synonym	phdC1	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	synonym	yfhU	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	synonym	JW2522	Published Annotation - PubMed ID: 16397293	Jan 2006
	locus tag	b2538	Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu	May 2004
Product
	product	putative 3-phenylpropionate/cinnamate dioxygenase subunit alpha	Published Annotation - EcoCyc Accession Number: M009 Reference: Escherichia coli K-12 MG1655	Oct 2021
	alternate product name	3-phenylpropionate dioxygenase, large (alpha) subunit	Published Annotation - PubMed ID: 16397293	Jan 2006
	alternate product name	3-phenylpropionate dioxygenase, alpha subunit	Published Annotation - Swiss-Prot Accession Number: Q47139	Jan 2006
Protein Family
	protein family	IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit	Protein Sequence Similarity - InterPro Domain: IPR001663 Reference: Escherichia coli K-12 MG1655	Apr 2008
	protein family	PF00355 Rieske [2Fe-2S] domain	Protein Sequence Similarity - PFAM Model Name: PF00355 Reference: Escherichia coli K-12 MG1655	Jul 2018
	protein family	PF00848 Ring hydroxylating alpha subunit (catalytic domain)	Protein Sequence Similarity - PFAM Model Name: PF00848 Reference: Escherichia coli K-12 MG1655	Jul 2018
	protein family	IPR036922 Rieske [2Fe-2S] iron-sulphur domain superfamily	Protein Sequence Similarity - InterPro Domain: IPR036922 Reference: Escherichia coli K-12 MG1655	Jul 2018
	protein family	IPR005806 (DEPRECATED) Rieske [2Fe-2S] region	Protein Sequence Similarity - InterPro Domain: IPR005806 Reference: Escherichia coli K-12 MG1655	Apr 2008
	protein family	IPR015879 Aromatic-ring-hydroxylating dioxygenase, alpha subunit, C-terminal domain	Protein Sequence Similarity - InterPro Domain: IPR015879 Reference: Escherichia coli K-12 MG1655	Jul 2018
	protein family	IPR017941 Rieske [2Fe-2S] iron-sulphur domain	Protein Sequence Similarity - InterPro Domain: IPR017941 Reference: Escherichia coli K-12 MG1655	Jul 2018
Other
	EC number	1.-.-.-	Published Annotation - Database Name: EC2GO: GO:0016491 Reference: Escherichia coli K-12 MG1655	Jul 2018
	EC number	1.14.12.19	Published Annotation - Swiss-Prot Accession Number: P0ABR5	Feb 2006
	MultiFun	1.1.1 (metabolism; carbon utilization; carbon compounds)	Published Annotation - MultiFun Database Name: MultiFun	Feb 2002
	codon start	1	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	db xref	GI:1788888	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	db xref	GeneID:946998	Published Annotation - Entrez Gene Database ID: 946998 Reference: Escherichia coli K-12 MG1655	Jun 2009
	db xref	UniProtKB/Swiss-Prot:P0ABR5	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	db xref	EcoGene:EG13456	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	db xref	ASAP:ABE-0008355	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	db xref	UniProtKB:P0ABR5	Published Annotation - Swiss-Prot Accession Number: P0ABR5	Jan 2006
	function	enzyme; Degradation of small molecules: Carbon compounds	Published Annotation - GenBank Accession Number: U00096 Reference: Escherichia coli MG1655	Oct 1998
	note	GO_process: GO:0016052 - carbohydrate catabolic process	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	protein id	AAC75591.1	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
	subcellular localization	Unknown	Predicted by PSORTb - PSORTb Final_Score: 2.00 Reference: Escherichia coli K-12 MG1655	Feb 2008
	subsystem	component of in silico model iAF1260	Experimental - PubMed ID: 17593909 Reference: Escherichia coli K-12 MG1655	Jan 2009
	subsystem	component of in silico model iMC1010	Experimental - PubMed ID: 15129285 Reference: Escherichia coli K-12 MG1655	Mar 2009
	subsystem	component of in silico model iJR904	Experimental - PubMed ID: 12952533 Reference: Escherichia coli K-12 MG1655	Feb 2009
	transl table	11	Published Annotation - GenBank Accession Number: U00096.3 Reference: Escherichia coli K-12 MG1655	Oct 2013
Gene Ontology
	GO biological process	GO:0044237 cellular metabolic process	GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR015879 Reference: Escherichia coli K-12 MG1655	Jul 2018
	GO biological process	GO:0016052 carbohydrate catabolic process	Ontology Mapping - Source and Dest Ontology: MultiFun to GO	Mar 2004
	GO biological process	GO:0006725 cellular aromatic compound metabolic process	GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001663 Reference: Escherichia coli K-12 MG1655	Apr 2008
	GO biological process	GO:0006118 (OBSOLETE) electron transport	GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001663 Reference: Escherichia coli K-12 MG1655	Apr 2008
	GO biological process	GO:0055114 (OBSOLETE) oxidation-reduction process	GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR017941, IPR015879, IPR036922 Reference: Escherichia coli K-12 MG1655	Jul 2018
	GO molecular function	GO:0005506 iron ion binding	GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001663 Reference: Escherichia coli K-12 MG1655	Apr 2008
	GO molecular function	GO:0016491 oxidoreductase activity	GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005806 Reference: Escherichia coli K-12 MG1655	Apr 2008
	GO molecular function	GO:0051537 2 iron, 2 sulfur cluster binding	GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001663 Reference: Escherichia coli K-12 MG1655	Apr 2008

Comparative to top

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	Details	Genome	Feature	Name	Type
Member
	view	OrthoMCL (205 gammaproteobacteria)	APP-0004665	hcaE	CDS
	view	OrthoMCL (307 Enterobacteriaceae)	ATM-0004817	hcaE	CDS
	view	OrthoMCL (42 Serratia)	BEZ-0004585	hcaE	CDS
	view	OrthoMCL (UW draft)	CQJ-0003776	hcaE	CDS
Ortholog
	view	Citrobacter freundii ATCC 8090 [T]	AVI-0004068	hcaE	CDS
	view	Escherichia coli ATCC 8739	AEM-0006678		CDS
	view	Escherichia coli B7A (ETEC)	ADK-0009806		CDS
	view	Escherichia coli DEC7E (UM-IGS draft)	CFX-0002897	hcaE	CDS
	view	Escherichia coli DEC9A (UM-IGS draft)	CFY-0003378	bphA1	CDS
	view	Escherichia coli EC4024 (EHEC)	BBI-0000884		CDS
	view	Escherichia coli EDL933 (EHEC)	ABH-0027509	hcaE	CDS
	view	Escherichia coli HS	ADR-0007363	hcaE	CDS
	view	Escherichia coli K-12 DH10B	AEC-0002394	hcaE	CDS
	view	Escherichia coli K-12 W3110	ADY-0002609	hcaE	CDS
	view	Escherichia coli MOD1-ECOR68	CGA-0003045		CDS
	view	Escherichia coli MOD1-ECOR71	CGB-0002985		CDS
	view	Escherichia coli MOD1-ECOR8	CFZ-0002839		CDS
	view	Escherichia coli SE11	AFS-0002873		CDS
	view	Escherichia coli SMS-3-5	AFT-0002690	hcaE	CDS
	view	Escherichia coli Sakai (EHEC)	ACA-0133423	hcaE	CDS
	view	Escherichia coli TW14588 (EHEC)	BBK-0003732		CDS
	view	Photorhabdus luminescens subsp. laumondii TTO1 [T]	ACD-0141870	hcaE	CDS
	view	Shigella boydii 227	ADV-0002825	hcaA1	CDS
	view	Shigella flexneri 2457T	ABQ-0073907	hcaA1	CDS
	view	Shigella flexneri 301	ABT-0088838	hcaA1	CDS
	view	Shigella flexneri 8401	BAG-0002763	hcaA1	CDS
	view	Shigella sonnei 046	ADD-0002857	hcaE	CDS

Experimental to top

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SetName	SetDetails	Notes
stringent response	transcriptional profile of the stringent response	None
Recombinant heat-shock data	expression data for recombinant strain under heat shock	These data are from the Harcum laboratory. (Jeremy Glasner)
Suppressor tRNA expression	experiment comparing transcript levels in cells with and without suppressor tRNA expression	These 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 expression	experiment 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 shift	Aerobic shift	These 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)
Calibrator	Calibrated microarray experiments (50 hybridizations)	This data was used in the paper: Allen et al., J. Bacteriol. 185(21):6392-9 (Jeremy Glasner)
AffyData1	Affymetrix 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 top

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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 2664032 to 2675393
FeatureID	Name	Feature Type	Strand	Left End	Right End	Relationship
ABE-0000001		source	forward	1	4641652	Contains
ABE-0008337	suhB	CDS	forward	2663442	2664245	Upstream
ABE-0008340	yfhR	CDS	forward	2664390	2665244	Upstream
ABE-0008346	csiE	CDS	forward	2665435	2666715	Upstream
ABE-0008348	hcaT	CDS	complement	2666707	2667846	Upstream
ABE-0008351	hcaR	CDS	complement	2668006	2668896	Upstream
ABE-0285710	iroK	CDS	complement	2668006	2668071	Upstream
ABE-0008355	hcaE	CDS	forward	2669032	2670393	Matches
ABE-0008357	hcaF	CDS	forward	2670390	2670908	Overlaps Downstream
ABE-0008359	hcaC	CDS	forward	2670908	2671228	Downstream
ABE-0008361	hcaB	CDS	forward	2671225	2672037	Downstream
ABE-0008363	hcaD	CDS	forward	2672047	2673249	Downstream
ABE-0008365	yphA	CDS	forward	2673346	2673768	Downstream
ABE-0285528		repeat_region	forward	2673776	2673809	Downstream
ABE-0008368	yphB	CDS	complement	2673816	2674688	Downstream
ABE-0008370	yphC	CDS	complement	2674700	2675761	Downstream

Links

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Release Notes to top

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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.

ABE-0008355 (hcaE) - Escherichia coli K-12 MG1655 - Feature Annotation