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

ABE-0003414 (rutB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0003414 showshow history
Names
rutB JW5139 ECK1002 ycdL b1011
Product
putative isochorismatase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 1072171 1072863 693 231
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR000868 (IPR000868 Isochorismatase-like) Apr 2008
Automated Process Approved IPR019916 (IPR019916 Ureidoacrylate amidohydrolase RutB) Jul 2018
Automated Process Approved IPR036380 (IPR036380 Isochorismatase-like superfamily) Jul 2018
Automated Process Approved PF00857 (PF00857 Isochorismatase family) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000868
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0016811 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR019916
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:IPR000868
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Uncurated name rutB Published Annotation - PubMed ID: 16540542
Reference: Escherichia coli K-12 		Aug 2007
Person Approved synonym ECK1002 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW5139 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ycdL Published Annotation - Swiss-Prot Accession Number: P75897 Aug 2002
Person Approved locus tag b1011 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product putative isochorismatase Published Sequence Analysis - PubMed ID: 16540542
Reference: Escherichia coli K-12 		Oct 2021
Automated Process Approved alternate product name ureidoacrylate amidohydrolase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Uncurated alternate product name putative amidohydrolase Published Annotation - Database Name: GenProtEC Jan 2006
Person Uncurated alternate product name hypothetical isochorismatase family protein Published Annotation - Swiss-Prot Accession Number: P75897 Jan 2006
Protein Family
Automated Process Approved protein family IPR036380 Isochorismatase-like superfamily Protein Sequence Similarity - InterPro Domain: IPR036380
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR000868 Isochorismatase-like Protein Sequence Similarity - InterPro Domain: IPR000868
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00857 Isochorismatase family Protein Sequence Similarity - PFAM Model Name: PF00857
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR019916 Ureidoacrylate amidohydrolase RutB Protein Sequence Similarity - InterPro Domain: IPR019916
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Automated Process Uncurated EC number 3.5.1.- Published Annotation - Database Name: EC2GO: GO:0016811
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated MultiFun 1.1.5 (metabolism; carbon utilization; other 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:EG13858 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:87081820 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:945699 Published Annotation - Entrez Gene Database ID: 945699
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P75897 Published Annotation - Swiss-Prot Accession Number: P75897 Jan 2006
Automated Process Approved db xref UniProtKB/Swiss-Prot:P75897 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0003414 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function enzyme; Pyrimidine nitrogen catabolism Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC74096.2 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:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000868
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:IPR000868
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0016811 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR019916
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0002389 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0003423 rutB CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003277 rutB CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0004126 rutB CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003106 rutB CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0001542 rutB CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0002123 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0007272 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0001019 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0005469 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0000937 CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0003366 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0008426 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0008025 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0007137 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0077242 rutB CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0001096 rutB CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0001340 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0009441 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0008307 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0001113 rutB CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0005572 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0005086 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0009955 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0008995 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0007600 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0005553 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0006088 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0006357 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0009856 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0006289 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0006943 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0006399 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0008365 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0007821 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0025315 CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007479 rutB_1 CDS
Automated Process Approved Go view Escherichia coli HS ADR-0005803 CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0001337 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0000971 rutB CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0001022 ycdL CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0001312 rutB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0001306 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0001262 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0001099 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0175234 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0001099 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002113 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0131185 CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0000609 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0001077 ycdL CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0002276 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0001041 ycdL CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0003998 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0000728 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0004417 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0004141 ycdL CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0004803 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0004150 ycdL CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0004414 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0009155 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0003143 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0286480 CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0004570 ycdl1 CDS
Person Uncurated Go view Pseudomonas syringae pv. tomato DC3000 ADG-0001185 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0004860 CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0072124 CDS
Person Approved Go view Shigella flexneri 301 ABT-0087364 CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0001084 CDS
Person Approved Go view Shigella sonnei 046 ADD-0001107 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0005724 CDS
Molecular Interactions to toptop
Author Approval Feature Name Technique Evidence Comment Annotated
Person Approved ABE-0003414 rutB lambda repressor assay Doodle - bnumber: b1011 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)
Strains to toptop

Strains with mutations in this feature.

Strain NameStrain TypeStrain InformationStrain RequestFeatureIDNameMutation DetailsExperiments Using StrainSubmitter
FB22121mutantTn5 InsertionRequest the StrainABE-0003414rutBb1011::Tn5KAN-I-SceI at position 499 in Minus orientation ,+ pKD465Blattner Laboratory
FB22269mutantTn5 InsertionRequest the StrainABE-0003414rutBb1011::Tn5KAN-I-SceI at position 499 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 1067171 to 1077863
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0003392wrbACDScomplement10671121067708Downstream
ABE-0285039ymdFCDSforward10680811068254Downstream
ABE-0285419repeat_regionforward10683541068451Downstream
ABE-0003401rutGCDScomplement10685111069839Downstream
ABE-0003403rutFCDScomplement10698601070354Downstream
ABE-0003407rutECDScomplement10703651070955Downstream
ABE-0003410rutDCDScomplement10709651071765Downstream
ABE-0003412rutCCDScomplement10717731072159Downstream
ABE-0003414rutBCDScomplement10721711072863Matches
ABE-0003416rutACDScomplement10728631074011Overlaps Upstream
ABE-0003422rutRCDSforward10742421074880Upstream
ABE-0285420repeat_regionforward10748851074912Upstream
ABE-0003424putACDScomplement10749201078882Upstream
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.