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

ABE-0004659 (paaF) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0004659 showshow history
Names
paaF ydbR JW1388 ECK1390 b1393
Product
enoyl-CoA hydratase-isomerase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 1457497 1458264 768 256
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR002197 (IPR002197 DNA binding HTH domain, Fis-type) Apr 2008
Automated Process Approved IPR001753 (IPR001753 Enoyl-CoA hydratase/isomerase) Apr 2008
Automated Process Approved IPR029045 (IPR029045 ClpP/crotonase-like domain superfamily) Jul 2018
Automated Process Approved PF00378 (PF00378 Enoyl-CoA hydratase/isomerase) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
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:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001753
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0006355 regulation of transcription, DNA-templated GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002197
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:IPR001753
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0003700 DNA-binding transcription factor activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002197
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name paaF Experimental - PubMed ID: 9748275
Reference: Escherichia coli 		Aug 2002
Person Approved synonym ECK1390 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym ydbR Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym JW1388 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b1393 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product enoyl-CoA hydratase-isomerase Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved alternate product name 2,3-dehydroadipyl-CoA hydratase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Uncurated alternate product name putative enoyl-CoA hydratase-isomerase in phenylacetic acid degradation Published Annotation - Database Name: GenProtEC Jan 2006
Person Uncurated alternate product name probable enoyl-CoA hydratase Experimental - PubMed ID: 9748275
Reference: Escherichia coli 		Jan 2006
Protein Family
Automated Process Approved protein family IPR001753 Enoyl-CoA hydratase/isomerase Protein Sequence Similarity - InterPro Domain: IPR001753
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR002197 DNA binding HTH domain, Fis-type Protein Sequence Similarity - InterPro Domain: IPR002197
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR029045 ClpP/crotonase-like domain superfamily Protein Sequence Similarity - InterPro Domain: IPR029045
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00378 Enoyl-CoA hydratase/isomerase Protein Sequence Similarity - PFAM Model Name: PF00378
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Approved EC number 4.2.1.17 Published Annotation - Swiss-Prot Accession Number: P76082 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 ASAP:ABE-0004659 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1787659 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:946011 Published Annotation - Entrez Gene Database ID: 946011
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P76082 Published Annotation - Swiss-Prot Accession Number: P76082 Jan 2005
Automated Process Approved db xref EcoGene:EG13740 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P76082 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function enzyme; Phenylacetic acid degradation Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved note 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 AAC74475.1 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
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:0006355 regulation of transcription, DNA-templated GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002197
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001753
Reference: Escherichia coli K-12 MG1655 		Apr 2008
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 molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001753
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0003700 DNA-binding transcription factor activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002197
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-0004960 paaF CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0004265 paaF CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0002551 paaF CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0004141 paaF CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0002131 paaF CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0001812 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0002564 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0009978 paaF CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0008031 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005164 PaaF CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0001509 ech-6 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0001828 ech-6 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0005347 paaF CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0006247 paaF CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0006018 CDS
Automated Process Approved Go view Escherichia coli HS ADR-0006158 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0001305 paaF CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0001428 paaF CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0001383 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0001695 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0001580 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0001507 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0001478 paaF CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0000174 paaF CDS
Person Uncurated Go view Pseudomonas syringae pv. tomato DC3000 ADG-0003213 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0002702 paaF CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0265246 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0007081 CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0008266 paaF CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0013103 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0003964 paaF CDS
Molecular Interactions to toptop
Author Approval Feature Name Technique Evidence Comment Annotated
Person Approved ABE-0004659 paaF lambda repressor assay Doodle - bnumber: b1393 Oct 2003
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 1452497 to 1463264
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0004644paaZCDScomplement14515971453642Upstream
ABE-0004649paaACDSforward14539271454856Upstream
ABE-0004651paaBCDSforward14548681455155Upstream
ABE-0004653paaCCDSforward14551641455910Upstream
ABE-0004655paaDCDSforward14559251456422Upstream
ABE-0004657paaECDSforward14564301457500Overlaps Upstream
ABE-0004659paaFCDSforward14574971458264Matches
ABE-0004661paaGCDSforward14582641459052Overlaps Downstream
ABE-0004663paaHCDSforward14590541460481Downstream
ABE-0285720matS8protein_bindforward14599851459997Downstream
ABE-0004666paaICDSforward14604711460893Downstream
ABE-0004668paaJCDSforward14608931462098Downstream
ABE-0004671paaKCDSforward14621251463438Downstream
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.