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

ABE-0001058 (ykgE) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0001058 showshow history
Names
ykgE JW5041 ECK0305 b0306
Product
putative lactate utilization oxidoreductase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 321608 322327 720 240
Sequence

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View sequence with flanking regions: bases upstream and bases downstream

Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR004017 (IPR004017 Cysteine-rich domain) Apr 2008
Automated Process Approved PF02754 (PF02754 Cysteine-rich domain) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
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
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name ykgE Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK0305 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW5041 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b0306 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product putative lactate utilization oxidoreductase Published Annotation - EcoCyc Accession Number: G6176
Reference: Escherichia coli K-12 MG1655 		Oct 2021
Person Uncurated alternate product name putative oxidoreductase Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name putative dehydrogenase subunit Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Approved alternate product name predicted oxidoreductase Published Annotation - PubMed ID: 16397293 Jan 2006
Protein Family
Automated Process Approved protein family PF02754 Cysteine-rich domain Protein Sequence Similarity - PFAM Model Name: PF02754
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR004017 Cysteine-rich domain Protein Sequence Similarity - InterPro Domain: IPR004017
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
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:EG13582 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0001058 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P77252 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1786497 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948438 Published Annotation - Entrez Gene Database ID: 948438
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P77252 Published Annotation - Swiss-Prot Accession Number: P77252 Jan 2005
Person Approved function putative enzyme; Not classified Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note putative dehydrogenase subunit Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC73409.1 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
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 Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0002499 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0003641 ykgE CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003673 ykgE CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0007087 ykgE CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003253 ykgE CDS
Ortholog
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0007696 CDS
Person Uncurated Go view Dickeya dadantii 3937 ABF-0014759 CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0002333 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0007452 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0000378 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0000297 ykgE CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0004006 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0009327 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0007089 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005805 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0076498 ykgE CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0000363 lutA CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0000450 lutA CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0007075 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0008098 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0000287 ykgE CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0004771 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0003857 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0010532 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0008114 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0009191 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0007287 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0005198 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0008001 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0008931 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0007821 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0009093 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0007536 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0007484 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0008895 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0024272 ykgE CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0008758 lutA_1 CDS
Automated Process Approved Go view Escherichia coli HS ADR-0005041 CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0000631 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0000331 ykgE CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0000311 ykgE CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0000527 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0000601 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0000438 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0000418 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0174510 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0000332 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0000337 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0130235 ykgE CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0004906 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0000330 ykgE CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0006446 CDS
Person Uncurated Go view Pectobacterium atrosepticum SCRI1043 ABL-0062180 CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0001107 CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0001071 CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0265086 CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0005655 CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0071227 ykgE CDS
Person Approved Go view Shigella flexneri 301 ABT-0086621 ykgE CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0000331 ykgE CDS
Person Approved Go view Shigella sonnei 046 ADD-0000344 ykgE 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
FB23544mutantTn5 InsertionRequest the StrainABE-0001058ykgEykgE::Tn5KAN-I-SceI at position 507 in Plus orientation ,- pKD460Blattner Laboratory
FB23655mutantTn5 InsertionRequest the StrainABE-0001058ykgEykgE::Tn5KAN-I-SceI at position 507 in Plus 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 316608 to 327327
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0001032ykgApseudogenecomplement316482317136Upstream
ABE-0285171ykgQpseudogeneforward317385317567Upstream
ABE-0001038rclCCDScomplement317726318319Upstream
ABE-0001043rclBCDScomplement318331318567Upstream
ABE-0001048rclACDScomplement318676320001Upstream
ABE-0001054rclRCDSforward320227321081Upstream
ABE-0001058ykgECDSforward321608322327Matches
ABE-0001060ykgFCDSforward322338323765Downstream
ABE-0001062ykgGCDSforward323758324453Downstream
ABE-0001066ykgHCDScomplement324696325364Downstream
ABE-0001070betACDScomplement325577327247Downstream
ABE-0001072betBCDScomplement327261328733Downstream
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.