luxS:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

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Standard Name

luxS

Gene Synonym(s)

ECK2681, b2687, JW2662, ygaG[1], ygaG

Product Desc.

autoinducer 2 (AI-2) synthase; acts in quorum sensing[2]; S-ribosylhomocysteine lyase (AI-2 synthesis protein)[3]

S-ribosylhomocysteine lyase, autoinducer 2 (AI-2) synthesis; functions in quorum sensing; acid-inducible[4]

Product Synonyms(s)

S-ribosylhomocysteinase[1], B2687[2][1], LuxS[2][1], YgaG[2][1] , ECK2681, JW2662, ygaG, b2687

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): luxS[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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E. coli luxS is capable of inducing V. harveyi luminescence. The products of LuxS are homocysteine and the AI-2 precursor 4,5-dihydroxy-2,3-pentadione (DPD). DPD is unstable and reacts with water to form AI-2, a hydroxymethylfuran. LuxS may be involved in the recycling of S-adenosylhomocysteine. LuxS also makes AI-3. LuxS is regulated by cyaR sRNA (De Lay, 2009).[4]



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

luxS

Mnemonic

LUminescence eXpression

Synonyms

ECK2681, b2687, JW2662, ygaG[1], ygaG

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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

60.61 minutes 

MG1655: 2812755..2812240
<gbrowseImage> name=NC_000913:2812240..2812755 source=MG1655 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2698052..2698567
<gbrowseImage> name=NC_012759:2698052..2698567 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2813389..2812874
<gbrowseImage> name=NC_007779:2812874..2813389 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2905297..2904782
<gbrowseImage> name=NC_010473:2904782..2905297 source=DH10B preset=GeneLocation </gbrowseImage>

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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

Coding Start (SO:0000323)

MG1655

2812243

Edman degradation

PMID:9298646


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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

ΔluxS (Keio:JW2662)

deletion

deletion

PMID:16738554

Shigen
CGSC10100[5]

ΔygaG::kan

deletion

Biolog:respiration

unable to respire N-Acetyl-D-glucosamine

PMID:16095938

ΔygaG::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938

ΔygaG::kan

deletion

Biolog:respiration

unable to respire a-Ketoglutarate

PMID:16095938

ΔluxS1368

CGSC:82301

ΔluxS768::kan

PMID:16738554

CGSC:101704


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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

JW2662

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCCGTTGTTAGATAGCTTCAC

Primer 2:CCGATGTGCAGTTCCTGCAACTT

8G10

Kohara Phage

Genobase

PMID:3038334

23B7

Kohara Phage

Genobase

PMID:3038334

pheA18::Tn10

Linked marker

CAG12158 = CGSC7421[5]

est. P1 cotransduction: 1% [6]

srlD3131::Tn10

Linked marker

CAG18642 = CGSC7423[5]

est. P1 cotransduction: 63% [6]
Synonyms:zfh-3131::Tn10, zfi-3131::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:EG12712

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12712

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002369

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947168

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2573

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008842

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

LuxS

Synonyms

S-ribosylhomocysteinase[1], B2687[2][1], LuxS[2][1], YgaG[2][1] , ECK2681, JW2662, ygaG, b2687

Product description

autoinducer 2 (AI-2) synthase; acts in quorum sensing[2]; S-ribosylhomocysteine lyase (AI-2 synthesis protein)[3]

S-ribosylhomocysteine lyase, autoinducer 2 (AI-2) synthesis; functions in quorum sensing; acid-inducible[4]

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.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status

GO:0005506

iron ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003815

F

Seeded from EcoCyc (v14.0)

complete

GO:0005506

iron ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0408

F

Seeded from EcoCyc (v14.0)

complete

GO:0043768

S-ribosylhomocysteine lyase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00091

F

Seeded from EcoCyc (v14.0)

complete

GO:0043768

S-ribosylhomocysteine lyase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:4.4.1.21

F

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011249

F

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc (v14.0)

complete

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

Protein

dnaK

PMID:15690043

Experiment(s):EBI-889967

Protein

ydbH

PMID:16606699

Experiment(s):EBI-1143673

Protein

lacZ

PMID:16606699

Experiment(s):EBI-1143673

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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

MPLLDSFTVD HTRMEAPAVR VAKTMNTPHG DAITVFDLRF CVPNKEVMPE RGIHTLEHLF
AGFMRNHLNG NGVEIIDISP MGCRTGFYMS LIGTPDEQRV ADAWKAAMED VLKVQDQNQI
PELNVYQCGT YQMHSLQEAQ DIARSILERD VRINSNEELA LPKEKLQELH I
Length

171

Mol. Wt

19.415 kDa

pI

5.2 (calculated)

Extinction coefficient

9,970 - 10,345 (calc based on 3 Y, 1 W, and 3 C residues)


Domains/Motifs/Modification Sites

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

Type Residues Description Notes References

Initiator Methionine

1

Removed

UniProt:P45578

Domain

2..162

PF02664 S-Ribosylhomocysteinase (LuxS)

PMID:19920124

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

Structures

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

Models

View models at:

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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:16130599

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947168

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008842

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P45578

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12712

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12712

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947168

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002369

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2573

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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 MC4100

2.83E+03

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

E. coli K-12 MG1655

9963

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

9292

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

8903

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Notes

Transcription and Transcriptional Regulation

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<protect>

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

Transcription unit(s)

luxS

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_000913:2812735..2812775 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


Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b2687 (EcoliWiki Page)

NCBI GEO profiles for luxS

microarray

GenExpDB:b2687 (EcoliWiki Page)

Summary of data for luxS from multiple microarray studies


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 (2812668..2812913) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ06; Well:D6[7]

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Notes

Accessions Related to luxS Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG12712

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2573

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2687

EcoGene

EcoGene:EG12712

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002369

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008842

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Evolution

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Homologs in Other Organisms

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

Organism Homologs (Statistics) Comments

Xenopus tropicalis

  • ENSXETP00000040515 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

YGAG

From SHIGELLACYC

E. coli O157

YGAG

From ECOO157CYC


Do-It-Yourself Web Tools

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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)

PF02664 S-Ribosylhomocysteinase (LuxS)

Superfamily (EcoliWiki Page)

SUPERFAMILY:63411

PFAM (EcoliWiki Page)

PFAM:PF02664

EcoCyc

EcoCyc:EG12712

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12712

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002369

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2573

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008842

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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

  1. 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. 4.0 4.1 4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. 6.0 6.1 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).
  7. Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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