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

ABE-0012026 (yidK) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0012026 showshow history
Names
yidK JW3655 ECK3670 b3679
Product
putative transporter
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 3858401 3860116 1716 572
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR001734 (IPR001734 Sodium/solute symporter) Apr 2008
Automated Process Approved PF00474 (PF00474 Sodium:solute symporter family) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO biological process GO:0006810 transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001734
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: IPR001734
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO cellular component GO:0016020 membrane GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001734
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:0022857 transmembrane transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR001734
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:IPR001734
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name yidK Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW3655 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK3670 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b3679 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product putative transporter Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 		Oct 2021
Person Uncurated alternate product name putative myo-inositol transport protein (SSS family) Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name putative cotransporter Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family PF00474 Sodium:solute symporter family Protein Sequence Similarity - PFAM Model Name: PF00474
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR001734 Sodium/solute symporter Protein Sequence Similarity - InterPro Domain: IPR001734
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Uncurated MultiFun 7.3 (location of gene products; inner membrane) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 4.S.129 (transport; substrate; myo-inositol) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 4.2.A.21 (transport; Electrochemical potential driven transporters; Porters (Uni-, Sym- and Antiporters); The Solute:Sodium Symporter (SSS) Family) 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:EG11706 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0012026 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1790113 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P31448 Published Annotation - Swiss-Prot Accession Number: P31448 Jan 2005
Automated Process Approved db xref UniProtKB/Swiss-Prot:P31448 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948185 Published Annotation - Entrez Gene Database ID: 948185
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved function putative transport; Not classified Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note putative cotransporter; GO_component: GO:0009274 - peptidoglycan-based cell wall; GO_component: GO:0019866 - organelle inner membrane Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC76702.1 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
Automated Process Approved GO biological process GO:0006810 transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001734
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: IPR001734
Reference: Escherichia coli K-12 MG1655 		Jul 2018
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 Approved GO cellular component GO:0016020 membrane GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001734
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: IPR001734
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:IPR001734
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 (205 gammaproteobacteria) APP-0003994 yidK CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0004208 yidK CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0008275 yidK CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003459 yidK CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0002428 yidK CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0000564 yidK CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0004590 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0003923 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0003738 yidK CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0000491 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0007695 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005923 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0080786 yidK CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004519 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0004938 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0007583 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0007498 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004243 yidK CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0008618 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0005667 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0008441 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0006955 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0006503 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0006751 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0009945 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0005005 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0007757 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0005543 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0005611 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0005475 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0006469 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0005950 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0028813 yidK CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0005244 yidK CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004175 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003430 yidK CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003684 yidK CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004347 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004375 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004243 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178375 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004037 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004041 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0134698 yidK CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0003019 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004242 yidK CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0140901 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0004027 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003270 CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0075249 yidK CDS
Person Approved Go view Shigella flexneri 301 ABT-0090000 yidK CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0004069 yidK CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0005345 yidK 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
FB21391mutantTn5 InsertionRequest the StrainABE-0012026yidKyidK::Tn5KAN-2 at position 1029 in Minus orientation ,- pKD465Blattner Laboratory
FB21392mutantTn5 InsertionRequest the StrainABE-0012026yidKyidK::Tn5KAN-2 at position 1029 in Minus 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 3853401 to 3865116
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0285198tisBCDSforward38535533853642Downstream
ABE-0285631repeat_regionforward38537123853747Downstream
ABE-0285810ysdECDScomplement38537663853840Downstream
ABE-0012011emrDCDSforward38539223855106Downstream
ABE-0012013yidFCDScomplement38551143855611Downstream
ABE-0012015yidGCDScomplement38556083855970Downstream
ABE-0012018yidHCDScomplement38559603856307Downstream
ABE-0012022yidICDSforward38564153856864Downstream
ABE-0012024yidJCDScomplement38569113858404Overlaps Downstream
ABE-0012026yidKCDScomplement38584013860116Matches
ABE-0012034yidLCDSforward38602833861176Upstream
ABE-0285077glvG_2CDSpcomplement38611733861349Upstream
ABE-0285134glvGpseudogenecomplement38611733861987Upstream
ABE-0012036glvG_1CDSpcomplement38613493861987Upstream
ABE-0012038glvC_2CDSpcomplement38619873862472Upstream
ABE-0285140glvCpseudogenecomplement38619873863603Upstream
ABE-0012043glvC_1CDSpcomplement38624973863603Upstream
ABE-0012049yidPCDSforward38638993864615Upstream
ABE-0012051yidECDScomplement38646123866273Upstream
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.