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

ABE-0014097 (sgcE) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0014097 showshow history
Names
sgcE yjhK JW4263 ECK4290 b4301
Product
KpLE2 phage-like element; predicted epimerase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 4526905 4527537 633 211
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR000056 (IPR000056 Ribulose-phosphate 3-epimerase-like) Apr 2008
Automated Process Approved IPR013785 (IPR013785 Aldolase-type TIM barrel) Apr 2008
Automated Process Approved IPR011060 (IPR011060 Ribulose-phosphate binding barrel) Apr 2008
Automated Process Approved PF00834 (PF00834 Ribulose-phosphate 3 epimerase family) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO biological process GO:0005975 carbohydrate metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000056
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0016857 racemase and epimerase activity, acting on carbohydrates and derivatives GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR000056
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0004750 ribulose-phosphate 3-epimerase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000056
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:IPR013785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name sgcE Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK4290 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym yjhK Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym JW4263 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b4301 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product KpLE2 phage-like element; predicted epimerase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name KpLE2 phage-like element; putative ribulose-phosphate 3-epimerase Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name putative epimerase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family IPR013785 Aldolase-type TIM barrel Protein Sequence Similarity - InterPro Domain: IPR013785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR000056 Ribulose-phosphate 3-epimerase-like Protein Sequence Similarity - InterPro Domain: IPR000056
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00834 Ribulose-phosphate 3 epimerase family Protein Sequence Similarity - PFAM Model Name: PF00834
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR011060 Ribulose-phosphate binding barrel Protein Sequence Similarity - InterPro Domain: IPR011060
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 5.1.3.- Published Annotation - Swiss-Prot Accession Number: P39362 Feb 2006
Person Uncurated MultiFun 1.7.1 (metabolism; central intermediary metabolism; unassigned reversible reactions) 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:EG12553 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1790754 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P39362 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P39362 Published Annotation - Swiss-Prot Accession Number: P39362 Jan 2005
Automated Process Approved db xref ASAP:ABE-0014097 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948829 Published Annotation - Entrez Gene Database ID: 948829
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved function putative enzyme; Not classified Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note putative epimerase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC77257.1 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
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
Person Uncurated subsystem component of in silico model iAF1260 Experimental - PubMed ID: 17593909
Reference: Escherichia coli K-12 MG1655 		Jan 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:IPR013785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0005975 carbohydrate metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000056
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004750 ribulose-phosphate 3-epimerase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000056
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0016857 racemase and epimerase activity, acting on carbohydrates and derivatives GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR000056
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:IPR013785
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-0006922 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0005143 sgcE CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0005841 sgcE CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0005494 sgcE CDS
Ortholog
Automated Process Uncurated Go view Escherichia coli ATCC 11775 [T] AMC-0004419 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003976 sgcE CDS
Person Uncurated Go view Escherichia coli K-12 W3110 ADY-0004397 sgcE CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0005719 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0001889 sgcE CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0005996 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0004703 CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0004591 CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0004859 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0006157 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0005097 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0005148 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0004608 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0005229 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0006097 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0004686 CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0001674 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0006344 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0005275 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0005818 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0005156 CDS
Person Uncurated Go view Salmonella Typhi CT18 ABX-0108027 CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0083240 CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0001958 CDS
Person Uncurated Go view Salmonella Typhimurium LT2 [T] ABU-0095310 CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0007740 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0005797 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0006986 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 4521905 to 4532537
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0234214KpLE2prophageforward44965404536609Contains
ABE-0014084yjhFCDScomplement45206714522020Downstream
ABE-0014087yjhGCDScomplement45221274524094Downstream
ABE-0014089yjhHCDScomplement45241054525010Downstream
ABE-0014092yjhICDScomplement45250154525803Downstream
ABE-0014094sgcRCDScomplement45261064526888Downstream
ABE-0014097sgcECDScomplement45269054527537Matches
ABE-0014100sgcACDScomplement45275494527980Upstream
ABE-0285202ryjBncRNAforward45279774528066Upstream
ABE-0014102sgcQCDScomplement45281114528917Upstream
ABE-0014105sgcCCDScomplement45289304530243Upstream
ABE-0285086sgcBCDScomplement45302554530533Upstream
ABE-0014112sgcXCDScomplement45305304531651Upstream
ABE-0285248yjhYpseudogenecomplement45320604532310Upstream
ABE-0014115yjhPCDScomplement45324374533183Upstream
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.