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

ABE-0000939 (argF) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0000939 showshow history
Names
argF JW0266 ECK0274 argD Arg5 b0273
Product
CP4-6 prophage; ornithine carbamoyltransferase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 289301 290305 1005 335
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR002292 (IPR002292 Ornithine/putrescine carbamoyltransferase) Apr 2008
Automated Process Approved IPR006130 (IPR006130 Aspartate/ornithine carbamoyltransferase) Apr 2008
Automated Process Approved IPR006132 (IPR006132 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding) Apr 2008
Automated Process Approved IPR006131 (IPR006131 Aspartate/ornithine carbamoyltransferase, Asp/Orn-binding domain) Apr 2008
Automated Process Approved IPR036901 (IPR036901 Aspartate/ornithine carbamoyltransferase superfamily) Jul 2018
Automated Process Approved PF02729 (PF02729 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain) Jul 2018
Automated Process Approved PF00185 (PF00185 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0006526 arginine biosynthetic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0006520 cellular amino acid metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002292
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0009348 ornithine carbamoyltransferase complex GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002292
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
Person Uncurated GO cellular component GO:0005737 cytoplasm Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO molecular function GO:0016743 carboxyl- or carbamoyltransferase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR006130
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004585 ornithine carbamoyltransferase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002292
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016597 amino acid binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR006130
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name argF Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK0274 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW0266 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym argD Published Sequence Analysis - PubMed ID: 9729611 Aug 2003
Person Approved synonym Arg5 Published Sequence Analysis - PubMed ID: 9729611 Aug 2003
Person Approved locus tag b0273 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product CP4-6 prophage; ornithine carbamoyltransferase Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 		Oct 2021
Automated Process Approved alternate product name ornithine carbamoyltransferase 2, chain F; CP4-6 prophage Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved alternate product name ornithine carbamoyltransferase 2, chain F Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Uncurated alternate product name CP4-6 prophage; ornithine carbamoyltransferase 2, catalytic chain F Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family PF02729 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain Protein Sequence Similarity - PFAM Model Name: PF02729
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR036901 Aspartate/ornithine carbamoyltransferase superfamily Protein Sequence Similarity - InterPro Domain: IPR036901
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR006130 Aspartate/ornithine carbamoyltransferase Protein Sequence Similarity - InterPro Domain: IPR006130
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR002292 Ornithine/putrescine carbamoyltransferase Protein Sequence Similarity - InterPro Domain: IPR002292
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00185 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain Protein Sequence Similarity - PFAM Model Name: PF00185
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR006131 Aspartate/ornithine carbamoyltransferase, Asp/Orn-binding domain Protein Sequence Similarity - InterPro Domain: IPR006131
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR006132 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding Protein Sequence Similarity - InterPro Domain: IPR006132
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 2.1.3.3 Published Annotation - Swiss-Prot Accession Number: P06960 Feb 2006
Automated Process Uncurated EC number 2.1.3.- Published Annotation - Database Name: EC2GO: GO:0016743
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated MultiFun 8.1 (extrachromosomal; prophage genes and phage related functions) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.5.1.3 (metabolism; building block biosynthesis; amino acids; arginine) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 7.1 (location of gene products; cytoplasm) 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:944844 Published Annotation - Entrez Gene Database ID: 944844
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:1786469 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG10067 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P06960 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P06960 Published Annotation - Swiss-Prot Accession Number: P06960 Jan 2005
Automated Process Approved db xref ASAP:ABE-0000939 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function enzyme; Amino acid biosynthesis: Arginine; Phage or Prophage Related Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved note ornithine carbamoyltransferase 2, chain F; GO_component: GO:0005737 - cytoplasm; GO_process: GO:0006526 - arginine biosynthetic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC73376.1 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: 9.97
Reference: Escherichia coli K-12 MG1655 		Feb 2008
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
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:0006520 cellular amino acid metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002292
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0006526 arginine biosynthetic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO cellular component GO:0009348 ornithine carbamoyltransferase complex GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002292
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO cellular component GO:0005737 cytoplasm Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
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:0016597 amino acid binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR006130
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016743 carboxyl- or carbamoyltransferase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR006130
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004585 ornithine carbamoyltransferase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002292
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-0000336 argF CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0000345 argF CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0000734 argF CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000085 argF CDS
Ortholog
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0000918 argF CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0000299 argF CDS
Person Uncurated Go view Escherichia coli K-12 W3110 ADY-0000277 argF CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0002888 argI CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0002160 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0008296 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 284301 to 295305
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0234205CP4-6prophageforward262958297265Contains
ABE-0285342misc_featureforward262958297265Contains
ABE-0000923yagFCDSforward283201285168Downstream
ABE-0000929yagGCDSforward285395286777Downstream
ABE-0000931yagHCDSforward286789288399Downstream
ABE-0000933xynRCDScomplement288404289162Downstream
ABE-0000939argFCDScomplement289301290305Matches
ABE-0285771argLCDScomplement290275290370Overlaps Upstream
ABE-0285250ykgSpseudogeneforward290428290633Upstream
ABE-0000945mobile_elementcomplement290634291401Upstream
ABE-0000948insB-3CDScomplement290649291152Upstream
ABE-0000951insA-3CDScomplement291071291346Upstream
ABE-0000963yagJpseudogeneforward291400292231Upstream
ABE-0000965yagKCDScomplement292322292948Upstream
ABE-0000970yagLCDScomplement293220293918Upstream
ABE-0000972yagMCDScomplement293945294799Upstream
ABE-0285744ykgVCDScomplement294918295142Upstream
ABE-0000976yagNCDScomplement295139295579Upstream
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.