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

ABE-0013380 (alsK) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0013380 showshow history
Names
alsK JW5724 ECK4077 yjcT b4084
Product
D-allose kinase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 4306870 4307799 930 310
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 IPR000600 (IPR000600 ROK family) Apr 2008
Automated Process Approved PF00480 (PF00480 ROK family) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0006355 regulation of transcription, DNA-templated Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name alsK Experimental - PubMed ID: 9401019
Reference: Escherichia coli 		Aug 2002
Person Approved synonym yjcT Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW5724 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK4077 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b4084 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product D-allose kinase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name D-allose kinase Experimental - PubMed ID: 9401019
Reference: Escherichia coli 		Jan 2006
Person Uncurated alternate product name putative transcriptional regulator (NagC/XylR (ROK) familiy) Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family IPR000600 ROK family Protein Sequence Similarity - InterPro Domain: IPR000600
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00480 ROK family Protein Sequence Similarity - PFAM Model Name: PF00480
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Approved EC number 2.7.1.55 Published Annotation - Swiss-Prot Accession Number: P32718 Feb 2006
Person Uncurated MultiFun 3.1.2 (regulation; type of regulation; transcriptional level) 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:EG11956 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1790522 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P32718 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948596 Published Annotation - Entrez Gene Database ID: 948596
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0013380 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P32718 Published Annotation - Swiss-Prot Accession Number: P32718 Jan 2005
Person Approved function putative regulator; Not classified Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note GO_process: GO:0006355 - regulation of transcription, DNA-dependent Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC77045.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Cytoplasmic Predicted by PSORTb - PSORTb Final_Score: 9.26
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:0006355 regulation of transcription, DNA-templated Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0003292 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0004855 alsK CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0004726 alsK CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0004307 alsK CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0004238 alsK CDS
Ortholog
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0001492 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0006370 alsK CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004377 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0006883 alsK CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0004167 yjcT CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0004719 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0010096 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006298 alsK CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0009206 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081297 alsK CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0006634 alsK CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004710 alsK CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007063 alsK CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004691 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003777 alsK CDS
Person Uncurated Go view Escherichia coli K-12 W3110 ADY-0004172 alsK CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004800 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004585 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004740 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178910 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004482 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004542 alsK CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004689 yjcT CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0001167 alsK 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 4301870 to 4312799
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0013368mdtOCDScomplement43010274303078Downstream
ABE-0013373mdtNCDScomplement43030784304109Downstream
ABE-0285201ytcACDScomplement43041284304403Downstream
ABE-0013377yjcSCDScomplement43046124306597Downstream
ABE-0013380alsKCDScomplement43068704307799Matches
ABE-0013382alsECDScomplement43077834308478Overlaps Upstream
ABE-0013392alsCCDScomplement43084894309469Upstream
ABE-0013394alsACDScomplement43094484310980Upstream
ABE-0285675repeat_regionforward43110144311095Upstream
ABE-0013398alsBCDScomplement43111074312042Upstream
ABE-0013400alsRCDScomplement43121014312991Upstream
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.