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

ABE-0013392 (alsC) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0013392 showshow history
Names
alsC JW4047 ECK4079 yjcV b4086
Product
membrane component of an ABC superfamily D-allose transporter
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 4308489 4309469 981 327
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR001851 (IPR001851 ABC transporter, permease) Apr 2008
Automated Process Approved PF02653 (PF02653 Branched-chain amino acid transport system / permease component) 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 Uncurated GO biological process GO:0055085 transmembrane transport GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001851
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO biological process GO:0006810 transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001851
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0016020 membrane GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001851
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO cellular component GO:0019866 organelle inner membrane Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO cellular component GO:0005886 plasma membrane GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Uncurated GO molecular function GO:0022857 transmembrane transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001851
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0005215 transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001851
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name alsC Experimental - PubMed ID: 9401019
Reference: Escherichia coli 		Aug 2002
Person Approved synonym ECK4079 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW4047 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym yjcV Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved locus tag b4086 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product membrane component of an ABC superfamily D-allose transporter Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 		Mar 2008
Person Uncurated alternate product name allose transport protein (ABC superfamily, membrane) Published Annotation - Database Name: GenProtEC Jan 2006
Automated Process Approved alternate product name D-allose transporter subunit Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Uncurated alternate product name D-allose transport system permease Experimental - PubMed ID: 9401019
Reference: Escherichia coli 		Jan 2006
Protein Family
Automated Process Approved protein family IPR001851 ABC transporter, permease Protein Sequence Similarity - InterPro Domain: IPR001851
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF02653 Branched-chain amino acid transport system / permease component Protein Sequence Similarity - PFAM Model Name: PF02653
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Approved EC number 3.6.3.17 Published Annotation - Swiss-Prot Accession Number: P32720 Feb 2006
Person Uncurated MultiFun 4.3.A.1.m (transport; Primary Active Transporters; Pyrophosphate Bond (ATP, GTP, P2) Hydrolysis-driven Active Transporters; The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases; ABC superfamily, membrane component) 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
Person Uncurated MultiFun 6.1 (cell structure; membrane) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 7.3 (location of gene products; inner membrane) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 4.S.10 (transport; substrate; allose/ribose) 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:EG11958 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0013392 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948594 Published Annotation - Entrez Gene Database ID: 948594
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P32720 Published Annotation - Swiss-Prot Accession Number: P32720 Jan 2005
Automated Process Approved db xref GI:1790524 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P32720 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function putative transport; Not classified Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note membrane component of ABC superfamily; GO_component: GO:0009274 - peptidoglycan-based cell wall; GO_component: GO:0019866 - organelle inner membrane; 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 AAC77047.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Cytoplasmic Membrane Predicted by PSORTb - PSORTb Final_Score: 10.00
Reference: Escherichia coli K-12 MG1655 		Feb 2008
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
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:0006810 transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001851
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO biological process GO:0055085 transmembrane transport GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001851
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO cellular component GO:0019866 organelle inner membrane Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO cellular component GO:0016020 membrane GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001851
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0005886 plasma membrane GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0005215 transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001851
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0022857 transmembrane transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001851
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-0005703 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0005638 alsC CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0006221 alsC CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0004438 alsC CDS
Ortholog
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0001494 CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0003861 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0006372 alsC CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0006881 alsC CDS
Automated Process Uncurated Go view Escherichia coli APEC O1 (APEC) AEG-0004169 alsC CDS
Person Uncurated Go view Escherichia coli ATCC 11775 [T] AMC-0005179 alsC pseudogene
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0010094 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006300 alsC CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0009204 AlsC CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081299 alsC CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004756 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0006636 alsC CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004712 alsC CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007065 alsC CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004693 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003779 alsC CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0004174 alsC CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004802 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004583 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004742 CDS
Person Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0179653 pseudogene
Automated Process Approved Go view Escherichia coli SE11 AFS-0004484 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004544 alsC CDS
Person Uncurated Go view Escherichia coli UTI89 (UPEC) AEA-0005422 alsC pseudogene
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0001169 alsC_2 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 4303489 to 4314469
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0013373mdtNCDScomplement43030784304109Downstream
ABE-0285201ytcACDScomplement43041284304403Downstream
ABE-0013377yjcSCDScomplement43046124306597Downstream
ABE-0013380alsKCDScomplement43068704307799Downstream
ABE-0013382alsECDScomplement43077834308478Downstream
ABE-0013392alsCCDScomplement43084894309469Matches
ABE-0013394alsACDScomplement43094484310980Overlaps Upstream
ABE-0285675repeat_regionforward43110144311095Upstream
ABE-0013398alsBCDScomplement43111074312042Upstream
ABE-0013400alsRCDScomplement43121014312991Upstream
ABE-0013405rpiBCDSforward43133504313799Upstream
ABE-0174120yjdPCDSforward43138684314197Upstream
ABE-0013412phnPCDScomplement43143444315102Upstream
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.