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Standard Name	lsrK
Gene Synonym(s)	ECK1504, b1511, JW1504, ydeV^[1], JW1504, ydeV
Product Desc.	putative kinase^[2]^[3]
Product Synonyms(s)	predicted sugar kinase^[1], B1511^[2]^[1], YdeV^[2]^[1] , ECK1504, JW1504, ydeV, b1511
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression
Regulation/Activity
Quick Links
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Notes

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Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	lsrK
Mnemonic	luxS regulated
Synonyms	ECK1504, b1511, JW1504, ydeV^[1], JW1504, ydeV
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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	34.41 minutes	MG1655: 1598233..1596641 <gbrowseImage> name=NC_000913:1596641..1598233 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
BW2952		NC_012759: 1488700..1490292 <gbrowseImage> name=NC_012759:1488700..1490292 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1601923..1600331 <gbrowseImage> name=NC_007779:1600331..1601923 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 1687858..1686266 <gbrowseImage> name=NC_010473:1686266..1687858 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
ΔydeV (Keio:JW1504)	deletion	deletion			PMID:16738554	Shigen
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW1504	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGCTCGACTCTTTACCCTTTC Primer 2:CCTAACCCAGGCGCTTTCCATAA
zdd-235::Tn10	Linked marker	CAG18461 = CGSC7378^[4]	est. P1 cotransduction: 4% ^[5] Synonyms:zdc-235::Tn10
zdi-925::Tn10	Linked marker	CAG12151 = CGSC7385^[4]	est. P1 cotransduction: % ^[5] Synonyms:zdh-925::Tn10
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:G6798	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13804	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003387	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946069	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3565	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005041	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name	YdeV
Synonyms	predicted sugar kinase^[1], B1511^[2]^[1], YdeV^[2]^[1] , ECK1504, JW1504, ydeV, b1511
Product description	putative kinase^[2]^[3]
EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki. See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0005737	cytoplasm	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0963	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0086	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005975	carbohydrate metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000577	P	Seeded from EcoCyc (v14.0)	complete
	GO:0005975	carbohydrate metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018484	P	Seeded from EcoCyc (v14.0)	complete
	GO:0005975	carbohydrate metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018485	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009372	quorum sensing	PMID:15601708	IMP: Inferred from Mutant Phenotype		P	Seeded from EcoCyc (v14.0)	complete
	GO:0016773	phosphotransferase activity, alcohol group as acceptor	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000577	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016773	phosphotransferase activity, alcohol group as acceptor	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018484	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016773	phosphotransferase activity, alcohol group as acceptor	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018485	F	Seeded from EcoCyc (v14.0)	complete
	GO:0044010	single-species biofilm formation	PMID:17557827	IMP: Inferred from Mutant Phenotype		P	Seeded from EcoCyc (v14.0)	complete
	GO:0071518	autoinducer-2 kinase activity	PMID:15601708	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:Q8ZKQ6	F	Seeded from EcoCyc (v14.0)	complete
	GO:0071518	autoinducer-2 kinase activity	PMID:20025244	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	Notes	References	Evidence
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Description	Evidence	Reference/Source	Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence	at EcoCyc MARLFTLSES KYYLMALDAG TGSIRAVIFD LEGNQIAVGQ AEWRHLAVPD VPGSMEFDLN KNWQLACECM RQALHNAGIA PEYIAAVSAC SMREGIVLYN NEGAPIWACA NVDARAAREV SELKELHNNT FENEVYRATG QTLALSAIPR LLWLAHHRSD IYRQASTITM ISDWLAYMLS GELAVDPSNA GTTGLLDLTT RDWKPALLDM AGLRADILSP VKETGTLLGV VSSQAAELCG LKAGTPVVVG GGDVQLGCLG LGVVRPAQTA VLGGTFWQQV VNLAAPVTDP EMNVRVNPHV IPGMVQAESI SFFTGLTMRW FRDAFCAEEK LIAERLGIDT YTLLEEMASR VPPGSWGVMP IFSDRMRFKT WYHAAPSFIN LSIDPDKCNK ATLFRALEEN AAIVSACNLQ QIADFSNIHP SSLVFAGGGS KGKLWSQILA DVSGLPVNIP VVKEATALGC AIAAGVGAGI FSSMAETGER LVRWERTHTP DPEKHELYQD SRDKWQAVYQ DQLGLVDHGL TTSLWKAPGL
Length	530
Mol. Wt	57.544 kDa
pI	5.2 (calculated)
Extinction coefficient	93,390 - 94,640 (calc based on 11 Y, 14 W, and 10 C residues)
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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type	Residues	Description	References
Domain	13..260	PF00370 FGGY family of carbohydrate kinases, N-terminal domain	PMID:19920124
Domain	267..468	PF02782 FGGY family of carbohydrate kinases, C-terminal domain	PMID:19920124
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See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=lsrK taxon=562,83333 </beststructure>

Models

View models at:

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See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:49176118	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946069	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005041	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P77432	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G6798	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13804	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946069	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003387	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3565	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Cellular Levels

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Notes	Reference(s)
Protein	E. coli K-12 MG1655	5^a	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	12	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
Protein	E. coli K-12 MG1655	0^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
ydeV
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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:1598213..1598253 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b1511 (EcoliWiki Page)	NCBI GEO profiles for ydeV
microarray	GenExpDB:b1511 (EcoliWiki Page)	Summary of data for ydeV from multiple microarray studies
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
	GFP Fusion	Intergenic region (1598164..1598368) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ17; Well:F8^[6]
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Notes

Accessions Related to lsrK Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:G6798	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3565	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1511
EcoGene	EcoGene:EG13804	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003387	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005041	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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Organism	Homologs (Statistics)	Comments
Apis mellifera	ENSAPMP00000007716 (score: 1.000; bootstrap: 82%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YGR194C (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPCPJ7322c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00025315001 (score: 1.000; bootstrap: 100%) GSTENP00011242001 (score: 0.265)	From Inparanoid:20070104
E. coli O157	YDEV	From ECOO157CYC
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Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF00370 FGGY family of carbohydrate kinases, N-terminal domain
Pfam (EcoliWiki Page)	PF02782 FGGY family of carbohydrate kinases, C-terminal domain
Superfamily (EcoliWiki Page)	SUPERFAMILY:53067
Superfamily (EcoliWiki Page)	SUPERFAMILY:53067
EcoCyc	EcoCyc:G6798	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13804	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003387	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3565	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005041	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 CGSC: The Coli Genetics Stock Center
↑ ^5.0 ^5.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

lsrK:On One Page

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Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

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Genetic Resources

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Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to lsrK Expression

Notes

Links

Evolution

Homologs in Other Organisms

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Notes

Families

Notes

Links

References

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