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

ABE-0013405 (rpiB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0013405 showshow history
Names
rpiB alsB yjcA alsI JW4051 ECK4083 b4090
Product
ribose 5-phosphate isomerase B/allose 6-phosphate isomerase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 4313350 4313799 450 150
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR004785 (IPR004785 Ribose 5-phosphate isomerase B) Apr 2008
Automated Process Approved IPR003500 (IPR003500 Sugar-phosphate isomerase, RpiB/LacA/LacB family) Apr 2008
Automated Process Approved IPR036569 (IPR036569 Sugar-phosphate isomerase, RpiB/LacA/LacB superfamily) Jul 2018
Automated Process Approved PF02502 (PF02502 Ribose/Galactose Isomerase) 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:IPR003500
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 Approved GO biological process GO:0006098 pentose-phosphate shunt GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0009052 pentose-phosphate shunt, non-oxidative branch Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO molecular function GO:0016853 isomerase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR003500, IPR036569
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0004751 ribose-5-phosphate isomerase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name rpiB Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK4083 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW4051 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym alsB Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved synonym yjcA Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym alsI Published Annotation - Database Name: EcoCyc
Reference: Escherichia coli K-12 MG1655 		Oct 2006
Person Approved locus tag b4090 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product ribose 5-phosphate isomerase B/allose 6-phosphate isomerase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name ribose 5-phosphate isomerase B Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Uncurated alternate product name ribose 5-phosphate isomerase B, also acts as allose 6-phosphate isomerase Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family IPR036569 Sugar-phosphate isomerase, RpiB/LacA/LacB superfamily Protein Sequence Similarity - InterPro Domain: IPR036569
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR003500 Sugar-phosphate isomerase, RpiB/LacA/LacB family Protein Sequence Similarity - InterPro Domain: IPR003500
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR004785 Ribose 5-phosphate isomerase B Protein Sequence Similarity - InterPro Domain: IPR004785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF02502 Ribose/Galactose Isomerase Protein Sequence Similarity - PFAM Model Name: PF02502
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Automated Process Uncurated EC number 5.-.-.- Published Annotation - Database Name: EC2GO: GO:0016853
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Approved EC number 5.3.1.6 Published Annotation - Swiss-Prot Accession Number: P37351 Feb 2006
Person Uncurated MultiFun 1.7.3 (metabolism; central intermediary metabolism; pentose phosphate shunt, non-oxidative branch) 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 EcoGene:EG11827 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P37351 Published Annotation - Swiss-Prot Accession Number: P37351 Jan 2005
Automated Process Approved db xref GeneID:948602 Published Annotation - Entrez Gene Database ID: 948602
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0013405 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P37351 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1790528 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function enzyme; Central intermediary metabolism: Non-oxidative branch, pentose pathway Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note ribose 5-phosphate isomerase B; GO_process: GO:0016052 - carbohydrate catabolic process; GO_process: GO:0009052 - pentose-phosphate shunt, non-oxidative branch Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC77051.1 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 iMC1010 Experimental - PubMed ID: 15129285
Reference: Escherichia coli K-12 MG1655 		Mar 2009
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
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:0005975 carbohydrate metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003500
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0009052 pentose-phosphate shunt, non-oxidative branch Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
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:0006098 pentose-phosphate shunt GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004785
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0016853 isomerase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR003500, IPR036569
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0004751 ribose-5-phosphate isomerase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004785
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-0002851 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0003370 rpiB CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003324 rpiB CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0004069 rpiB CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003644 rpiB CDS
Ortholog
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0001499 CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0003857 rpiB CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0006376 rpiB CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004384 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0006877 rpiB CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0004173 rpiB CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0004712 rpiB CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0010089 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006305 rpiB CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0009200 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081303 rpiB CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004760 rpiB CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0006641 rpiB CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004716 rpiB CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007069 rpiB CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004697 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003783 rpiB CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0004178 rpiB CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004746 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178917 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004489 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004548 rpiB CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004694 rpiB CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0006925 CDS
Person Uncurated Go view Pectobacterium atrosepticum SCRI1043 ABL-0061098 rpiB CDS
Person Uncurated Go view Pectobacterium carotovorum WPP14 ADT-0000216 rpiB CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0001316 rpiB CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0005340 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0002214 rpiB CDS
Person Uncurated Go view Shigella boydii 227 ADV-0004480 rpiB pseudogene
Person Uncurated Go view Shigella sonnei 046 ADD-0004633 rpiB pseudogene
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0003193 CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0001173 rpiB CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0000910 CDS
Person Uncurated Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0234959 rpiB1 CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0005058 rpiB CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0003348 rpiB CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0007142 rpiB CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0004002 rpiB CDS
Person Uncurated Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0126618 rpiB CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0006456 rpiB CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0005947 rpiB CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0000613 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0005929 rpiB CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0004282 rpiB CDS
Person Uncurated Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0030474 rpiB CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0007391 rpiB CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0000902 rpiB CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0003599 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0004780 rpiB CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0007304 rpiB CDS
Person Uncurated Go view Yersinia pseudotuberculosis IP32953 ACZ-0000821 rpiB CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0000957 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0004063 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
FB21650mutantTn5 InsertionRequest the StrainABE-0013405rpiBrpiB::Tn5KAN-I-SceI at position 151 in Plus orientation ,- pKD465Blattner Laboratory
FB21651mutantTn5 InsertionRequest the StrainABE-0013405rpiBrpiB::Tn5KAN-I-SceI at position 151 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 4308350 to 4318799
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0013382alsECDScomplement43077834308478Upstream
ABE-0013392alsCCDScomplement43084894309469Upstream
ABE-0013394alsACDScomplement43094484310980Upstream
ABE-0285675repeat_regionforward43110144311095Upstream
ABE-0013398alsBCDScomplement43111074312042Upstream
ABE-0013400alsRCDScomplement43121014312991Upstream
ABE-0013405rpiBCDSforward43133504313799Matches
ABE-0174120yjdPCDSforward43138684314197Downstream
ABE-0013412phnPCDScomplement43143444315102Downstream
ABE-0013415phnOCDScomplement43151044315538Downstream
ABE-0013417phnNCDScomplement43155254316082Downstream
ABE-0013419phnMCDScomplement43160824317218Downstream
ABE-0013421phnLCDScomplement43172154317895Downstream
ABE-0285676repeat_regionforward43179174317999Downstream
ABE-0013424phnKCDScomplement43180064318764Downstream
ABE-0013426phnJCDScomplement43187614319606Downstream
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.