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

ABE-0004671 (paaK) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0004671 showshow history
Names
paaK JW5218 ECK1395 b1398
Product
phenylacetyl-CoA ligase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 1462125 1463438 1314 438
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR000873 (IPR000873 AMP-dependent synthetase/ligase) Apr 2008
Automated Process Approved IPR011880 (IPR011880 Phenylacetate-CoA ligase) Apr 2008
Automated Process Approved IPR028154 (IPR028154 AMP-dependent ligase, C-terminal) Jul 2018
Automated Process Approved PF14535 (PF14535 AMP-binding enzyme C-terminal domain) Jul 2018
Automated Process Approved PF00501 (PF00501 AMP-binding enzyme) 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 Uncurated GO biological process GO:0010124 phenylacetate catabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR011880
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000873
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 Uncurated GO molecular function GO:0047475 phenylacetate-CoA ligase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR011880
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:IPR000873
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name paaK Experimental - PubMed ID: 9748275
Reference: Escherichia coli 		Aug 2002
Person Approved synonym JW5218 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK1395 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b1398 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product phenylacetyl-CoA ligase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name phenylacetate-CoA ligase Experimental - PubMed ID: 9748275
Reference: Escherichia coli 		Jan 2006
Person Uncurated alternate product name putative phenylacetyl-CoA ligase of phenylacetic acid degradation Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family IPR000873 AMP-dependent synthetase/ligase Protein Sequence Similarity - InterPro Domain: IPR000873
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00501 AMP-binding enzyme Protein Sequence Similarity - PFAM Model Name: PF00501
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF14535 AMP-binding enzyme C-terminal domain Protein Sequence Similarity - PFAM Model Name: PF14535
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR028154 AMP-dependent ligase, C-terminal Protein Sequence Similarity - InterPro Domain: IPR028154
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR011880 Phenylacetate-CoA ligase Protein Sequence Similarity - InterPro Domain: IPR011880
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 6.2.1.30 Published Annotation - Swiss-Prot Accession Number: P76085 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 GeneID:945963 Published Annotation - Entrez Gene Database ID: 945963
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P76085 Published Annotation - Swiss-Prot Accession Number: P76085 Jan 2006
Automated Process Approved db xref EcoGene:EG13745 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P76085 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0004671 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1787664 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 AAC74480.1 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 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
Automated Process Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000873
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 Uncurated GO biological process GO:0010124 phenylacetate catabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR011880
Reference: Escherichia coli K-12 MG1655 		Jul 2018
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 Uncurated GO molecular function GO:0047475 phenylacetate-CoA ligase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR011880
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:IPR000873
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 (14 enterobacteria) AMM-0004864 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0004995 paaK CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0004482 paaK CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0002466 paaK CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0004158 paaK CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0002126 paaK CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0001817 paaF CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0002569 paaF CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0009983 paaK CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0008026 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0005296 paaK CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005159 CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0001514 paaF CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0001833 paaF CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0005342 paaK CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0006252 paaK CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0006023 paaF CDS
Automated Process Approved Go view Escherichia coli HS ADR-0006163 paaF CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0001310 paaK CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0001433 paaK CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0001378 paaF CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0001700 paaF CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0001575 paaF CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0001512 CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0001780 paaK CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0001483 paaK CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0000169 paaK CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0002697 paaK CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0007074 paaK CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0008271 paaK CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0013130 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0003959 paaK 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 1457125 to 1468438
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0004657paaECDSforward14564301457500Upstream
ABE-0004659paaFCDSforward14574971458264Upstream
ABE-0004661paaGCDSforward14582641459052Upstream
ABE-0004663paaHCDSforward14590541460481Upstream
ABE-0285720matS8protein_bindforward14599851459997Upstream
ABE-0004666paaICDSforward14604711460893Upstream
ABE-0004668paaJCDSforward14608931462098Upstream
ABE-0004671paaKCDSforward14621251463438Matches
ABE-0004674paaXCDSforward14635391464489Downstream
ABE-0004676paaYCDSforward14644711465061Downstream
ABE-0285217ynbGCDScomplement14651651465230Downstream
ABE-0004680ydbA_1CDSpforward14653921467950Downstream
ABE-0285093ydbApseudogeneforward14653921467909(Interval #1) Downstream
ABE-0004681is_elementforward14679101469240Downstream
ABE-0285448mobile_elementcomplement14679101469240Downstream
ABE-0004683insD-2CDScomplement14679211468826Downstream
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.