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

ABE-0011696 (lyxK) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0011696 showshow history
Names
lyxK xylK yiaP lyx JW3552 ECK3569 b3580
Product
L-xylulose kinase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 3747084 3748580 1497 499
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR000577 (IPR000577 Carbohydrate kinase, FGGY) Apr 2008
Automated Process Approved IPR018484 (IPR018484 Carbohydrate kinase, FGGY, N-terminal) Jul 2018
Automated Process Approved IPR018485 (IPR018485 Carbohydrate kinase, FGGY, C-terminal) Jul 2018
Automated Process Approved PF00370 (PF00370 FGGY family of carbohydrate kinases, N-terminal domain) Jul 2018
Automated Process Approved PF02782 (PF02782 FGGY family of carbohydrate kinases, C-terminal domain) 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 Approved GO biological process GO:0005975 carbohydrate metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000577
Reference: Escherichia coli K-12 MG1655 		Apr 2008
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
Automated Process Uncurated GO molecular function GO:0016773 phosphotransferase activity, alcohol group as acceptor GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR018484, IPR018485
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name lyxK Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW3552 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated synonym lyx Published Annotation in EcoGene - EG Number: EG12284
Reference: Escherichia coli K-12 MG1655 		Aug 2007
Automated Process Approved synonym xylK Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym ECK3569 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym yiaP Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved locus tag b3580 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product L-xylulose kinase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name 3-keto-L-gulonate kinase Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name L-xylulose kinase, cryptic Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family IPR000577 Carbohydrate kinase, FGGY Protein Sequence Similarity - InterPro Domain: IPR000577
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR018485 Carbohydrate kinase, FGGY, C-terminal Protein Sequence Similarity - InterPro Domain: IPR018485
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR018484 Carbohydrate kinase, FGGY, N-terminal Protein Sequence Similarity - InterPro Domain: IPR018484
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF02782 FGGY family of carbohydrate kinases, C-terminal domain Protein Sequence Similarity - PFAM Model Name: PF02782
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00370 FGGY family of carbohydrate kinases, N-terminal domain Protein Sequence Similarity - PFAM Model Name: PF00370
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Automated Process Uncurated EC number 2.7.1.- Published Annotation - Database Name: EC2GO: GO:0016773
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Approved EC number 2.7.1.53 Published Annotation - Swiss-Prot Accession Number: P37677 Feb 2006
Person Uncurated MultiFun 10 (cryptic genes) 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:EG12284 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P37677 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948101 Published Annotation - Entrez Gene Database ID: 948101
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P37677 Published Annotation - Swiss-Prot Accession Number: P37677 Jan 2005
Automated Process Approved db xref ASAP:ABE-0011696 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1790005 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function enzyme; Degradation of small molecules: Carbon compounds Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note L-xylulose kinase, cryptic; 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 AAC76604.1 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: 8.96
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:0005975 carbohydrate metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000577
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 Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Uncurated GO molecular function GO:0016773 phosphotransferase activity, alcohol group as acceptor GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR018484, IPR018485
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-0003599 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002636 lyxK CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0002562 lyxK CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0002616 lyxK CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003173 lyxK CDS
Ortholog
Automated Process Uncurated Go view Citrobacter freundii ATCC 8090 [T] AVI-0000698 xylB_1 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0000454 CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0001450 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0004723 lyx CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0003724 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0007490 lyx CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0003641 lyxK CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0000594 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0005468 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006986 lyx CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005272 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0080580 lyxK CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004089 lyx CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0005052 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0006909 lyx CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0005138 lyx CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004077 lyx CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0008509 lyx CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0005367 lyx CDS
Automated Process Approved Go view Escherichia coli HS ADR-0008473 lyx CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004277 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003336 lyxK CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003785 lyxK CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004210 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004234 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004114 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178259 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0003928 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0003900 lyx CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004133 lyxK CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0000223 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0003610 lyx CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0000365 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0000383 lyx CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0004003 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0009636 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0288972 lyxK CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0002302 CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0008912 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0008055 CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0008306 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0011490 lyxK CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0005190 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0008355 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0005704 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0006098 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0006905 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0007450 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0008307 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0006538 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0003562 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0003524 lyxK CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0004584 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0008479 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0004513 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0007940 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0004746 CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0113650 lyxK CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0085571 lyxK CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0004437 lyxK CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0101362 lyxK CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0005537 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0004963 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0005273 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0001778 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003148 lyx CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0004209 lyxK CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0000185 lyx_2 CDS
Person Uncurated Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0234994 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0005038 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0003369 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0007122 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0004017 lyxK CDS
Person Approved Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0126566 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0006476 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0005966 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0001564 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0005948 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0004302 lyxK CDS
Person Uncurated Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0030492 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0007411 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0000922 lyxK CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0003620 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0004798 lyxK CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0007285 lyxK CDS
Person Uncurated Go view Yersinia pseudotuberculosis IP32953 ACZ-0000839 lyxK CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0000978 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0004042 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0000513 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
FB21308mutantTn5 InsertionRequest the StrainABE-0011696lyxKlyxK::Tn5KAN-I-SceI at position 1195 in Plus orientation ,- pKD465Blattner Laboratory
FB21309mutantTn5 InsertionRequest the StrainABE-0011696lyxKlyxK::Tn5KAN-I-SceI at position 1195 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 3742084 to 3753580
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0011677plaRCDScomplement37416843742532Upstream
ABE-0011682yiaKCDSforward37427333743731Upstream
ABE-0011684yiaLCDSforward37437433744210Upstream
ABE-0011690yiaMCDSforward37443283744801Upstream
ABE-0011692yiaNCDSforward37448043746081Upstream
ABE-0011694yiaOCDSforward37460943747080Upstream
ABE-0011696lyxKCDSforward37470843748580Matches
ABE-0011698sgbHCDSforward37485773749239Overlaps Downstream
ABE-0011700sgbUCDSforward37492323750092Downstream
ABE-0011702sgbECDSforward37500863750781Downstream
ABE-0285168ysaCpseudogenecomplement37508133750916Downstream
ABE-0285169ysaDpseudogeneforward37509173751094Downstream
ABE-0011704yiaTCDScomplement37511283751868Downstream
ABE-0011710yiaUCDSforward37519923752966Downstream
ABE-0011712yiaVCDScomplement37529633754099Downstream
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.