lysS: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

lysS

Gene Synonym(s)

ECK2885, b2890, JW2858, asuD, herC[1], herC

Product Desc.

lysyl tRNA synthetase (LysRSs), constitutive[2][3];

Component of lysyl tRNA synthetase (LysRSs), constitutive[2][3]


Lysine--tRNA ligase, constitutive[4]

Product Synonyms(s)

lysine tRNA synthetase, constitutive[1], B2890[2][1], HerC[2][1], AsuD[2][1], LysS[2][1] , asuD, ECK2885, herC, JW2858, b2890

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): prfB-lysS[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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Mutants have reduced OM vesiculation (McBroom, 2006).[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

lysS

Mnemonic

Lysine

Synonyms

ECK2885, b2890, JW2858, asuD, herC[1], herC

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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

65.34 minutes 

MG1655: 3033196..3031679
<gbrowseImage> name=NC_000913:3031679..3033196 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2920927..2919410
<gbrowseImage> name=NC_012967:2919410..2920927 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2918827..2920344
<gbrowseImage> name=NC_012759:2918827..2920344 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3033830..3032313
<gbrowseImage> name=NC_007779:3032313..3033830 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3127066..3125549
<gbrowseImage> name=NC_010473:3125549..3127066 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

3031682

Edman degradation

PMID:2183178


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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

lysS(del) (Keio:JW2858)

deletion

deletion

PMID:16738554

Shigen
CGSC10216[5]

lysS741(del)::kan

PMID:16738554

CGSC:101714


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Notes

Genetic Interactions

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<protect>

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

JW2858

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTCTGAACAACACGCACAGGG

Primer 2:CCTTTTACCGGACGCATCGCCGG

5B4

Kohara Phage

Genobase

PMID:3038334

22H4

Kohara Phage

Genobase

PMID:3038334

recD1901::Tn10

Linked marker

CAG12135 = CGSC7429[5]

est. P1 cotransduction: % [6]

speA210::Tn10

Linked marker

CAG12168 = CGSC7431[5]

est. P1 cotransduction: 7% [6]
Synonyms:zgd-210::Tn10, zgf-210::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:EG10552

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10552

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000545

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947372

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0547

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009486

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

LysS

Synonyms

lysine tRNA synthetase, constitutive[1], B2890[2][1], HerC[2][1], AsuD[2][1], LysS[2][1] , asuD, ECK2885, herC, JW2858, b2890

Product description

lysyl tRNA synthetase (LysRSs), constitutive[2][3];

Component of lysyl tRNA synthetase (LysRSs), constitutive[2][3]


Lysine--tRNA ligase, constitutive[4]

EC number (for enzymes)

Aminoacyl tRNA biosynthetic pathway & Lysine Biosynthetic pathway

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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:IPR002313

F

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004364

F

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006195

F

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018149

F

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018150

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:0000287

magnesium ion binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00252

F

Seeded from EcoCyc (v14.0)

complete

GO:0000287

magnesium ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0460

F

Seeded from EcoCyc (v14.0)

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004365

F

Seeded from EcoCyc (v14.0)

complete

GO:0016874

ligase activity

PMID:7782306

IDA: Inferred from Direct Assay

F

complete

GO:0004812

aminoacyl-tRNA ligase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004364

F

Seeded from EcoCyc (v14.0)

complete

GO:0004824

lysine-tRNA ligase activity

PMID:7782306

IGI: Inferred from Genetic Interaction

EcoliWiki:lysU

F

complete

GO:0004812

aminoacyl-tRNA ligase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006195

F

Seeded from EcoCyc (v14.0)

complete

GO:0004812

aminoacyl-tRNA ligase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018150

F

Seeded from EcoCyc (v14.0)

complete

GO:0006418

tRNA aminoacylation for protein translation

PMID:7782306

IGI: Inferred from Genetic Interaction

EcoliWiki:lysU

P

complete

GO:0004812

aminoacyl-tRNA ligase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0030

F

Seeded from EcoCyc (v14.0)

complete

GO:0006430

lysyl-tRNA aminoacylation

PMID:7782306

IGI: Inferred from Genetic Interaction

EcoliWiki:lysU

P

complete

GO:0004824

lysine-tRNA ligase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00252

F

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

PMID:8521806

IGI: Inferred from Genetic Interaction

EcoliWiki:translation

P

complete

GO:0004824

lysine-tRNA ligase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002313

F

Seeded from EcoCyc (v14.0)

complete

GO:0004824

lysine-tRNA ligase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018149

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

PMID:3325036

IC: Inferred by Curator

C

Missing: with/from

GO:0004824

lysine-tRNA ligase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:6.1.1.6

F

Seeded from EcoCyc (v14.0)

complete

GO:0004824

lysine-tRNA ligase activity

PMID:7782306

IGI: Inferred from Genetic Interaction

F

Seeded from EcoCyc (v14.0)

Missing: with/from

GO:0005524

ATP binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00252

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002313

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004364

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006195

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018149

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018150

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:0005829

cytosol

PMID:16858726

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002313

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004364

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006195

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018149

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018150

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0648

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

PMID:8521806

IGI: Inferred from Genetic Interaction

P

Seeded from EcoCyc (v14.0)

Missing: with/from

GO:0006418

tRNA aminoacylation for protein translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004364

P

Seeded from EcoCyc (v14.0)

complete

GO:0006418

tRNA aminoacylation for protein translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006195

P

Seeded from EcoCyc (v14.0)

complete

GO:0006418

tRNA aminoacylation for protein translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018150

P

Seeded from EcoCyc (v14.0)

complete

GO:0006418

tRNA aminoacylation for protein translation

PMID:7782306

IGI: Inferred from Genetic Interaction

P

Seeded from EcoCyc (v14.0)

Missing: with/from

GO:0006430

lysyl-tRNA aminoacylation

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00252

P

Seeded from EcoCyc (v14.0)

complete

GO:0006430

lysyl-tRNA aminoacylation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002313

P

Seeded from EcoCyc (v14.0)

complete

GO:0006430

lysyl-tRNA aminoacylation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018149

P

Seeded from EcoCyc (v14.0)

complete

GO:0006430

lysyl-tRNA aminoacylation

PMID:7782306

IGI: Inferred from Genetic Interaction

P

Seeded from EcoCyc (v14.0)

Missing: with/from

GO:0016020

membrane

PMID:16858726

IDA: Inferred from Direct Assay

C

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

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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

Protein

Subunits of lysyl tRNA synthetase (LysRSs), constitutive

could be indirect

Protein

ptrA

PMID:16606699

Experiment(s):EBI-1144197

Protein

ydeP

PMID:16606699

Experiment(s):EBI-1144197

Protein

phoB

PMID:16606699

Experiment(s):EBI-1144197

Protein

nadE

PMID:16606699

Experiment(s):EBI-1144197

Protein

fadJ

PMID:15690043

Experiment(s):EBI-890312

Protein

lysU

PMID:15690043

Experiment(s):EBI-890312, EBI-895256, EBI-895275

Protein

rhsA

PMID:15690043

Experiment(s):EBI-890312

Protein

bioA

PMID:15690043

Experiment(s):EBI-895256

Protein

gcd

PMID:15690043

Experiment(s):EBI-895256

Protein

pdxJ

PMID:15690043

Experiment(s):EBI-895256

Protein

rhaS

PMID:15690043

Experiment(s):EBI-895256

Protein

ygeV

PMID:15690043

Experiment(s):EBI-895256

Protein

ytfG

PMID:15690043

Experiment(s):EBI-895256

Protein

lysU

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):28.449952

Protein

fadJ

PMID:19402753

MALDI(Z-score):24.624673

Protein

gcd

PMID:19402753

LCMS(ID Probability):99.6

Protein

qorB

PMID:19402753

LCMS(ID Probability):99.6

Protein

tdcD

PMID:19402753

MALDI(Z-score):34.893222

Protein

ygeV

PMID:19402753

LCMS(ID Probability):99.6

Protein

rhsA

PMID:19402753

MALDI(Z-score):17.053160

Protein

rhaS

PMID:19402753

LCMS(ID Probability):99.2

Protein

bioA

PMID:19402753

LCMS(ID Probability):99.6

Protein

pdxJ

PMID:19402753

LCMS(ID Probability):99.6

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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 

MSEQHAQGAD AVVDLNNELK TRREKLANLR EQGIAFPNDF RRDHTSDQLH AEFDGKENEE
LEALNIEVAV AGRMMTRRIM GKASFVTLQD VGGRIQLYVA RDDLPEGVYN EQFKKWDLGD
ILGAKGKLFK TKTGELSIHC TELRLLTKAL RPLPDKFHGL QDQEARYRQR YLDLISNDES
RNTFKVRSQI LSGIRQFMVN RGFMEVETPM MQVIPGGAAA RPFITHHNAL DLDMYLRIAP
ELYLKRLVVG GFERVFEINR NFRNEGISVR HNPEFTMMEL YMAYADYKDL IELTESLFRT
LAQDILGKTE VTYGDVTLDF GKPFEKLTMR EAIKKYRPET DMADLDNFDS AKAIAESIGI
HVEKSWGLGR IVTEIFEEVA EAHLIQPTFI TEYPAEVSPL ARRNDVNPEI TDRFEFFIGG
REIGNGFSEL NDAEDQAQRF LDQVAAKDAG DDEAMFYDED YVTALEHGLP PTAGLGIGID
RMVMLFTNSH TIRDVILFPA MRPVK
Length

505

Mol. Wt

57.605 kDa

pI

5.0 (calculated)

Extinction coefficient

31,860 - 31,985 (calc based on 14 Y, 2 W, and 1 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

Initiator Methionine

1

Removed

UniProt:P0A8N3

Modification Site

2

phosphorylation site at S2

probability greater than 75%

PMID:17938405

Modification Site

133

phosphorylation site at T133

probability greater than 75%

PMID:17938405

Domain

68..146

PF01336 OB-fold nucleic acid binding domain

PMID:19920124

Domain

162..503

PF00152 tRNA synthetases class II (D, K and N)

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=lysS taxon=562,83333 </beststructure>

Models

View models at:

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</protect>

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:16130792

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947372

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009486

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A8N3

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10552

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10552

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947372

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000545

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0547

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

2.94E+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

Ecoli K-12

118.608+/-0.795

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.5422+/-0.07111

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by FISH

PMID:20671182

mRNA

Ecoli K-12

0.217534608

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

15890

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

2858

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

9244

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)

prfB-lysS

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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_000913:3033176..3033216 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:b2890 (EcoliWiki Page)

NCBI GEO profiles for lysS

microarray

GenExpDB:b2890 (EcoliWiki Page)

Summary of data for lysS 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
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Notes

Accessions Related to lysS Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10552

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0547

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2890

EcoGene

EcoGene:EG10552

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000545

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009486

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Evolution

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{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

Anopheles gambiae

  • ENSANGP00000018541 (score: 1.000; bootstrap: 100%)
  • ENSANGP00000015585 (score: 0.625)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000017005 (score: 1.000; bootstrap: 60%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT3G13490 (score: 1.000; bootstrap: 88%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000020828 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00042783 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00002238 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000029741 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000019375 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-021115-8 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040718-103 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0231263 (score: 1.000; bootstrap: 100%)
  • DDB0231264 (score: 0.057)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0027084 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA11433-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000030796 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000325448 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000007599 (score: 1.000; bootstrap: 100%)
  • ENSMMUP00000003387 (score: 0.264)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000002697 (score: 1.000; bootstrap: 100%)
  • ENSMODP00000002726 (score: 0.796)

From Inparanoid:20070104

Mus musculus

  • MGI:1934754 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q6K1T2 (score: 1.000; bootstrap: 87%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000014280 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000044454 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YDR037W (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPBC17G93c (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000141816 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00017760001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000004655 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Shigella flexneri

LYSS

From SHIGELLACYC

E. coli O157

LYSS

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

Pfam (EcoliWiki Page)

PF01336 OB-fold nucleic acid binding domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:50249

Panther (EcoliWiki Page)

PTHR22594:SF4

Superfamily (EcoliWiki Page)

SUPERFAMILY:55681

Pfam (EcoliWiki Page)

PF00152 tRNA synthetases class II (D, K and N)

EcoCyc

EcoCyc:EG10552

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10552

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000545

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0547

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009486

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 2.11 2.12 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 3.3 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).

Categories

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