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

ABE-0013971 (idnO) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0013971 showshow history
Names
idnO yjgU JW4223 ECK4259 b4266
Product
5-keto-D-gluconate-5-reductase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 4492587 4493351 765 255
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR002347 (IPR002347 Short-chain dehydrogenase/reductase SDR) Apr 2008
Automated Process Approved IPR002198 (IPR002198 (DEPRECATED) Short-chain dehydrogenase/reductase SDR) Apr 2008
Automated Process Approved IPR036291 (IPR036291 NAD(P)-binding domain superfamily) Jul 2018
Automated Process Approved PF00106 (PF00106 short chain dehydrogenase) 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:IPR002347
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:0016491 oxidoreductase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002347
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name idnO Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved synonym yjgU Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym JW4223 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK4259 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b4266 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product 5-keto-D-gluconate-5-reductase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name 5-keto-D-gluconate-5-reductase Published Annotation - Database Name: GenProtEC Jan 2006
Person Uncurated alternate product name 5-keto-D-gluconate 5-reductase Experimental - PubMed ID: 9658018
Reference: Escherichia coli 		Jan 2006
Protein Family
Automated Process Approved protein family IPR002198 (DEPRECATED) Short-chain dehydrogenase/reductase SDR Protein Sequence Similarity - InterPro Domain: IPR002198
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00106 short chain dehydrogenase Protein Sequence Similarity - PFAM Model Name: PF00106
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR002347 Short-chain dehydrogenase/reductase SDR Protein Sequence Similarity - InterPro Domain: IPR002347
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR036291 NAD(P)-binding domain superfamily Protein Sequence Similarity - InterPro Domain: IPR036291
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Approved EC number 1.1.1.69 Published Annotation - Swiss-Prot Accession Number: P0A9P9 Feb 2006
Person Uncurated MultiFun 7.1 (location of gene products; cytoplasm) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
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 UniProtKB/Swiss-Prot:P0A9P9 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P0A9P9 Published Annotation - Swiss-Prot Accession Number: P0A9P9 Jan 2006
Automated Process Approved db xref ASAP:ABE-0013971 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:947109 Published Annotation - Entrez Gene Database ID: 947109
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:1790717 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG12540 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function putative enzyme; Not classified Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note GO_component: GO:0005737 - cytoplasm; 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 AAC77223.1 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 iMC1010 Experimental - PubMed ID: 15129285
Reference: Escherichia coli K-12 MG1655 		Mar 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 iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 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:IPR002347
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 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:0016491 oxidoreductase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR002347
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-0003766 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0003108 idnO CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0002895 idnO CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0000076 kduD CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003937 idnO CDS
Ortholog
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0003919 gno CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0002995 idnO CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004567 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0004410 idnO CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0009142 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081581 idnO CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0005693 gno CDS
Automated Process Approved Go view Escherichia coli HS ADR-0009210 idnO CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003942 idnO CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0004355 idnO CDS
Person Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0179109 pseudogene
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004739 idnO CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004882 idnO CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0002354 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0004608 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0011207 CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0003091 CDS
Person Uncurated Go view Pectobacterium carotovorum WPP14 ADT-0002378 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0008928 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0005116 idnO CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0009106 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0013997 idnO CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0013239 idnO CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0006954 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0009241 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0007679 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0004214 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0007189 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0008292 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0009176 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0006205 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0004316 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0004278 idnO CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0005665 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0004548 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0006520 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0008799 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0004127 CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0005387 idnO CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0103773 idnO CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0004651 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0007366 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0005609 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0002430 CDS
Person Approved Go view Shigella sonnei 046 ADD-0004833 idnO CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0002164 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0004091 idnO CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0000611 gno CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0003538 idnO CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0002540 CDS
Person Uncurated Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0239901 idnO CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0005914 idnO CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0002453 idnO CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0007915 idnO CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0000928 idnO CDS
Person Uncurated Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0123739 idnO CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0004688 idnO CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0005586 idnO CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0001300 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0006906 idnO CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0005480 CDS
Person Uncurated Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0031334 CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0008221 idnO CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0002571 idnO CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0002338 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0005786 idnO CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0005436 idnO CDS
Person Uncurated Go view Yersinia pseudotuberculosis IP32953 ACZ-0002659 idnO CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0003182 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0001852 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)
Strains to toptop

Strains with mutations in this feature.

Strain NameStrain TypeStrain InformationStrain RequestFeatureIDNameMutation DetailsExperiments Using StrainSubmitter
FB22226mutantTn5 InsertionRequest the StrainABE-0013971idnOyjgU::Tn5KAN-I-SceI at position 601 in Plus orientation ,+ pKD460Blattner Laboratory
FB22954mutantTn5 InsertionRequest the StrainABE-0013971idnOyjgU::Tn5(KAN-I-SceI) at position 601 in Plus orientation ,- pKD46 0Blattner 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 4487587 to 4498351
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0013960lptGCDSforward44873184488400Downstream
ABE-0285696repeat_regionforward44885054488540Downstream
ABE-0013963yjgRCDScomplement44885614490063Downstream
ABE-0013966idnRCDScomplement44901414491139Downstream
ABE-0013969idnTCDScomplement44912064492525Downstream
ABE-0013971idnOCDScomplement44925874493351Matches
ABE-0013975idnDCDScomplement44933754494406Upstream
ABE-0013980idnKCDSforward44946234495186Upstream
ABE-0013982ahrCDScomplement44951904496209Upstream
ABE-0013986leuXtRNAforward44964054496489Upstream
ABE-0234214KpLE2prophageforward44965404536609Upstream
ABE-0013992intBpseudogeneforward44966754497940Upstream
ABE-0013997is_elementcomplement44981814499511Upstream
ABE-0285697mobile_elementforward44981814499511Upstream
ABE-0013999insC-6CDSforward44982724498637Upstream
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.