tilS:On One Page

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

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Standard Name

tilS

Gene Synonym(s)

ECK0187, b0188, JW0183, mesJ, yaeN[1], yaeN

Product Desc.

G6096[2][3]

tRNA(Ile) lysidine (L34) synthase, ATP-dependent; solely responsible for tRNA(Ile) lysidine 34 (L34) formation[4]

Product Synonyms(s)

tRNA(Ile)-lysidine synthetase[1], B0188[2][1], YaeN[2][1], MesJ[2][1], TilS[2][1] , ECK0187, JW0183, mesJ, yaeN, b0188

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): tilS[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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YaeN (TilS) is mistakenly labeled as a cell cycle gene in many databases. the confusion arose from the misinterpretation of Genbank Z50870. the real "minE suppressor" is the small rof gene next to tilS, labeled as orf4 in Z50870. PDB: 1NI5. Gu M., Burling T., Lima C.D., Structure of the MesJ PP-ATPase from Escherichia coli, unpublished. tilS is an essential gene. AFMB Structural Genomics target No. 121 (http://afmb.cnrs-mrs.fr/article171.html).[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

tilS

Mnemonic

tRNA(Ile) lysidine synthetase

Synonyms

ECK0187, b0188, JW0183, mesJ, yaeN[1], yaeN

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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

4.58 minutes 

MG1655: 212331..213629
<gbrowseImage> name=NC_000913:212331..213629 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 215173..216471
<gbrowseImage> name=NC_012967:215173..216471 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 212330..213628
<gbrowseImage> name=NC_012759:212330..213628 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 212331..213629
<gbrowseImage> name=NC_007779:212331..213629 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 186435..187733
<gbrowseImage> name=NC_010473:186435..187733 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
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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

mesJ

Nucleoside synthesis

lysidine synthesis is defective in about 50% of the tRNAlle2 molecules. See figure 3B.

PMID:14527414

lysidine synthesis is defective in about 50% of the tRNAlle2 molecules. See figure 3B.

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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

JW0183

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCACACTCACGCTCAATAGACA

Primer 2:CCACTAAGCGTTTTCTGCCAGAC

6F5

Kohara Phage

Genobase

PMID:3038334

10F9

Kohara Phage

Genobase

PMID:3038334

zad-220::Tn10

Linked marker

CAG12025 = CGSC7326[5]

est. P1 cotransduction: 3% [6]

yafC502::Tn10

Linked marker

CAG18436 = CGSC7328[5]

est. P1 cotransduction: 49% [6]
Synonyms:zae-502::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:G6096

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13220

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:944889

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002716

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3011

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000638

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

TilS

Synonyms

tRNA(Ile)-lysidine synthetase[1], B0188[2][1], YaeN[2][1], MesJ[2][1], TilS[2][1] , ECK0187, JW0183, mesJ, yaeN, b0188

Product description

G6096[2][3]

tRNA(Ile) lysidine (L34) synthase, ATP-dependent; solely responsible for tRNA(Ile) lysidine 34 (L34) formation[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:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012094

F

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012795

F

Seeded from EcoCyc (v14.0)

complete

GO:0006400

tRNA modification

PMID:14527414

IDA: Inferred from Direct Assay

P

Purified recombinant TilS protein creates the modified nucleoside lysidine in an in vitro reaction with ATP, lysine, and purified precursor tRNAIle2.

complete

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012796

F

Seeded from EcoCyc (v14.0)

complete

GO:0032267

tRNA(Ile)-lysidine synthase activity

PMID:14527414

IDA: Inferred from Direct Assay

F

Purified recombinant TilS protein creates the modified nucleoside lysidine in an in vitro reaction with ATP, lysine, and purified precursor tRNAIle2.

complete

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015262

F

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012094

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012795

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012796

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015262

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0067

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012094

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012795

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012796

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015262

C

Seeded from EcoCyc (v14.0)

complete

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:0006400

tRNA modification

PMID:14527414

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012094

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012795

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012796

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015262

P

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

RNA

tRNAIle2

Purified TilS binding to tRNAIle2 detected by gel shift analysis [7].

Protein

rplA

PMID:16606699

Experiment(s):EBI-1135871

Protein

rpsI

PMID:16606699

Experiment(s):EBI-1135871

Protein

moaC

PMID:16606699

Experiment(s):EBI-1135871

Protein

rplO

PMID:16606699

Experiment(s):EBI-1135871

Protein

rpsG

PMID:16606699

Experiment(s):EBI-1135871

Protein

fur

PMID:16606699

Experiment(s):EBI-1135871

Protein

rplJ

PMID:16606699

Experiment(s):EBI-1135871

Protein

frdC

PMID:16606699

Experiment(s):EBI-1135871

Protein

dinG

PMID:16606699

Experiment(s):EBI-1135871

Protein

uidC

PMID:16606699

Experiment(s):EBI-1135871

Protein

rpsA

PMID:16606699

Experiment(s):EBI-1135871

Protein

rplQ

PMID:16606699

Experiment(s):EBI-1135871

Protein

bglX

PMID:16606699

Experiment(s):EBI-1135871

Protein

rplB

PMID:16606699

Experiment(s):EBI-1135871
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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 

MTLTLNRQLL TSRQILVAFS GGLDSTVLLH QLVQWRTENP GVALRAIHVH HGLSANADAW
VTHCENVCQQ WQVPLVVERV QLAQEGLGIE AQARQARYQA FARTLLPGEV LVTAQHLDDQ
CETFLLALKR GSGPAGLSAM AEVSEFAGTR LIRPLLARTR GELVQWARQY DLRWIEDESN
QDDSYDRNFL RLRVVPLLQQ RWPHFAEATA RSAALCAEQE SLLDELLADD LAHCQSPQGT
LQIVPMLAMS DARRAAIIRR WLAGQNAPMP SRDALVRIWQ EVALAREDAS PCLRLGAFEI
RRYQSQLWWI KSVTGQSENI VPWQTWLQPL ELPAGLGSVQ LNAGGDIRPP RADEAVSVRF
KAPGLLHIVG RNGGRKLKKI WQELGVPPWL RDTTPLLFYG ETLIAAAGVF VTQEGVAEGE
NGVSFVWQKT LS
Length

432

Mol. Wt

48.203 kDa

pI

3.5 (calculated)

Extinction coefficient

89,950 - 90,700 (calc based on 5 Y, 15 W, and 6 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 Notes References

Domain

14..193

PF01171 PP-loop family

PMID:19920124

Domain

241..309

PF09179 TilS substrate binding domain

PMID:19920124

Domain

356..427

PF11734 TilS substrate C-terminal domain

PMID:19920124

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<motif_map/>

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

Structures

<beststructure> gene=tilS 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:16128181

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:944889

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000638

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P52097

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6096

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13220

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:944889

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002716

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3011

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 MG1655

490

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

122

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

221

molecules/cell/generation

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

Ribosome Profiling

PMID: 24766808

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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)

tilS

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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_000913:212311..212351 source=MG1655 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:b0188 (EcoliWiki Page)

NCBI GEO profiles for tilS

microarray

GenExpDB:b0188 (EcoliWiki Page)

Summary of data for tilS 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 (212181..212401) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ11; Well:A2[8]

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Notes

Accessions Related to tilS Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G6096

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3011

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0188

EcoGene

EcoGene:EG13220

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002716

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000638

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

Schizosaccharomyces pombe

  • SPAC12B108c (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

MESJ

From SHIGELLACYC

E. coli O157

MESJ

From ECOO157CYC

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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

Superfamily (EcoliWiki Page)

SUPERFAMILY:52402

Panther (EcoliWiki Page)

PTHR11807:SF2

Superfamily (EcoliWiki Page)

SUPERFAMILY:56037

Superfamily (EcoliWiki Page)

SUPERFAMILY:82829

Pfam (EcoliWiki Page)

PF01171 PP-loop family

Pfam (EcoliWiki Page)

PF09179 TilS substrate binding domain

Pfam (EcoliWiki Page)

PF11734 TilS substrate C-terminal domain

EcoCyc

EcoCyc:G6096

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13220

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002716

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3011

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000638

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. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 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 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. ↑ Soma, A et al. (2003) An RNA-modifying enzyme that governs both the codon and amino acid specificities of isoleucine tRNA. Mol. Cell 12 689-98 PubMed
  8. ↑ 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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