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

ABE-0008136 (acrD) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0008136 showshow history
Names
acrD yffA JW2454 ECK2465 b2470
Product
aminoglycoside/multidrug efflux system
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 2587595 2590708 3114 1038
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 IPR001036 (IPR001036 Acriflavin resistance protein) Apr 2008
Automated Process Approved IPR004764 (IPR004764 Hydrophobe/amphiphile efflux-1 HAE1) Apr 2008
Automated Process Approved IPR027463 (IPR027463 Multidrug efflux transporter AcrB TolC docking domain, DN/DC subdomains) Jul 2018
Automated Process Approved PF00873 (PF00873 AcrB/AcrD/AcrF family) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0042493 response to drug Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO biological process GO:0006855 drug transmembrane transport GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR004764
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Uncurated GO biological process GO:0055085 transmembrane transport GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001036
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:IPR004764
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0016020 membrane GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001036
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO cellular component GO:0016021 integral component of membrane GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004764
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
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 molecular function GO:0015562 efflux transmembrane transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR004764
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:IPR004764
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: IPR001036
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name acrD Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved synonym yffA Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym ECK2465 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW2454 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b2470 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product aminoglycoside/multidrug efflux system Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name aminoglycoside efflux pump Experimental - PubMed ID: 10692383
Reference: Escherichia coli 		Jan 2006
Person Uncurated alternate product name aminoglycoside/multidrug efflux pump (RND family) Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family IPR027463 Multidrug efflux transporter AcrB TolC docking domain, DN/DC subdomains Protein Sequence Similarity - InterPro Domain: IPR027463
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00873 AcrB/AcrD/AcrF family Protein Sequence Similarity - PFAM Model Name: PF00873
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR004764 Hydrophobe/amphiphile efflux-1 HAE1 Protein Sequence Similarity - InterPro Domain: IPR004764
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR001036 Acriflavin resistance protein Protein Sequence Similarity - InterPro Domain: IPR001036
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Uncurated MultiFun 4.2.A.6 (transport; Electrochemical potential driven transporters; Porters (Uni-, Sym- and Antiporters); The Resistance-Nodulation-Cell Division (RND) Superfamily) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 5.6.4 (cell processes; protection; drug resistance/sensitivity) 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.126 (transport; substrate; multidrug) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 6.1 (cell structure; membrane) 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:EG10014 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0008136 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1788814 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P24177 Published Annotation - Swiss-Prot Accession Number: P24177 Jan 2005
Automated Process Approved db xref UniProtKB/Swiss-Prot:P24177 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:945464 Published Annotation - Entrez Gene Database ID: 945464
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved function putative transport; Drug/analog sensitivity Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note GO_component: GO:0009274 - peptidoglycan-based cell wall; GO_component: GO:0019866 - organelle inner membrane; GO_process: GO:0042493 - response to drug Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC75523.1 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
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 biological process GO:0006855 drug transmembrane transport GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR004764
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO biological process GO:0042493 response to drug 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:IPR004764
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: IPR001036
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 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 cellular component GO:0016020 membrane GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001036
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO cellular component GO:0016021 integral component of membrane GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004764
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0005215 transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004764
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: IPR001036
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Uncurated GO molecular function GO:0015562 efflux transmembrane transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR004764
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Comparative to toptop
Author Approval Details Genome Feature Name Type
Homolog
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0267128 mexF CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0268352 CDS
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0000006 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000005 mdtF CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0000002 mdtF CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0000001 mdtF CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000002 mdtF CDS
Ortholog
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0003307 acrB_2 CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0003988 acrB_2 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0002502 CDS
Automated Process Uncurated Go view Escherichia coli APEC O1 (APEC) AEG-0002424 acrD CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0001837 acrD CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006756 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0079141 acrD CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0002811 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0003303 acrD CDS
Automated Process Uncurated Go view Escherichia coli E2348/69 (EPEC) BCI-0002866 acrD CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0007183 acrD CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0008531 acrD CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0027434 acrD CDS
Automated Process Uncurated Go view Escherichia coli F11 (UPEC) ADQ-0008059 acrB_1 CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007272 acrD CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0003116 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002326 acrD CDS
Automated Process Approved Go view Escherichia coli K-12 W3110 ADY-0002539 acrD CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0003124 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0002907 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0002914 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0002825 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0176998 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0002799 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002615 acrD CDS
Automated Process Approved Go view Escherichia coli Sakai (EHEC) ACA-0133351 acrD CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0002804 acrD CDS
Automated Process Approved Go view Salmonella Typhi CT18 ABX-0110724 acrD CDS
Automated Process Approved Go view Salmonella Typhimurium LT2 [T] ABU-0097891 acrD CDS
Automated Process Approved Go view Shigella dysenteriae 197 ADU-0003043 acrD CDS
Automated Process Approved Go view Shigella flexneri 2457T ABQ-0073812 acrD CDS
Automated Process Approved Go view Shigella flexneri 301 ABT-0256069 acrD CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0002689 acrD CDS
Automated Process Approved Go view Shigella sonnei 046 ADD-0002786 acrD 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
FB20818mutantTn5 InsertionRequest the StrainABE-0008136acrDacrD::Tn5KAN-2 at position 459 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 2582595 to 2595708
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0008120ypfGCDScomplement25817342582777Upstream
ABE-0008123nudKCDScomplement25829032583478Upstream
ABE-0008127aegACDScomplement25835462585525Upstream
ABE-0008132narQCDSforward25857312587431Upstream
ABE-0008136acrDCDSforward25875952590708Matches
ABE-0285189ypfMCDScomplement25908072590866Downstream
ABE-0008140yffBCDSforward25912472591603Downstream
ABE-0008142dapECDSforward25916072592734Downstream
ABE-0285068ypfNCDSforward25927622592962Downstream
ABE-0285523repeat_regionforward25929782593060Downstream
ABE-0008145ypfHCDScomplement25930722593770Downstream
ABE-0008150tmcACDScomplement25938442595859Downstream
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.