rluC: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

rluC

Gene Synonym(s)

ECK1071, b1086, JW1072, yceC[1], yceC

Product Desc.

23S rRNA pseudouridine synthase[2][3]

23S rRNA pseudouridine synthase; specific to U955, U2504, and U2580; non-essential gene[4]

Product Synonyms(s)

23S rRNA pseudouridylate synthase[1], B1086[2][1], YceC[2][1], RluC[2][1] , ECK1071, JW1072, yceC, b1086

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): rluC[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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Ribosome-associated protein (Jiang, 2007).[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

rluC

Mnemonic

rRNA, large, uridine

Synonyms

ECK1071, b1086, JW1072, yceC[1], yceC

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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

24.66 minutes 

MG1655: 1144163..1145122
<gbrowseImage> name=NC_000913:1144163..1145122 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1159509..1160468
<gbrowseImage> name=NC_012967:1159509..1160468 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1048088..1049047
<gbrowseImage> name=NC_012759:1048088..1049047 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1146517..1147476
<gbrowseImage> name=NC_007779:1146517..1147476 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1199608..1200567
<gbrowseImage> name=NC_010473:1199608..1200567 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

ΔrluC (Keio:JW1072)

deletion

deletion

PMID:16738554

Shigen
CGSC9026[5]

ΔrluC753::kan

PMID:16738554

CGSC:102734


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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

JW1072

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAAACAGAGACTCCATCCGT

Primer 2:CCGCGCGCGTTACGCAGCTTTTG

E3G11

Kohara Phage

Genobase

PMID:3038334

14C1

Kohara Phage

Genobase

PMID:3038334

zcc-282::Tn10

Linked marker

CAG18466 = CGSC7359[5]

est. P1 cotransduction: % [6]

zce-726::Tn10

Linked marker

CAG12078 = CGSC7361[5]

est. P1 cotransduction: 68% [6]

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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:EG11118

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11118

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001102

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945637

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1108

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003675

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

RluC

Synonyms

23S rRNA pseudouridylate synthase[1], B1086[2][1], YceC[2][1], RluC[2][1] , ECK1071, JW1072, yceC, b1086

Product description

23S rRNA pseudouridine synthase[2][3]

23S rRNA pseudouridine synthase; specific to U955, U2504, and U2580; non-essential gene[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:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002942

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006145

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006224

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006225

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020103

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0694

F

Seeded from EcoCyc (v14.0)

complete

GO:0009982

pseudouridine synthase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006145

F

Seeded from EcoCyc (v14.0)

complete

GO:0009982

pseudouridine synthase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006224

F

Seeded from EcoCyc (v14.0)

complete

GO:0000455

enzyme-directed rRNA pseudouridine synthesis

PMID:9843401

IDA: Inferred from Direct Assay

P

complete

GO:0009982

pseudouridine synthase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006225

F

Seeded from EcoCyc (v14.0)

complete

GO:0009982

pseudouridine synthase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020103

F

Seeded from EcoCyc (v14.0)

complete

GO:0031118

rRNA pseudouridine synthesis

PMID:9660827

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0031118

rRNA pseudouridine synthesis

PMID:9843401

IDA: Inferred from Direct Assay

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

Protein

accA

PMID:15690043

Experiment(s):EBI-882671

Protein

aceE

PMID:15690043

Experiment(s):EBI-882671

Protein

aceF

PMID:15690043

Experiment(s):EBI-882671

Protein

aidB

PMID:15690043

Experiment(s):EBI-882671

Protein

yncE

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

deaD

PMID:15690043

Experiment(s):EBI-882671

Protein

hrpA

PMID:15690043

Experiment(s):EBI-882671

Protein

lpdA

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

pssA

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rhlE

PMID:15690043

Experiment(s):EBI-882671

Protein

rplA

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rplB

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rplC

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rplD

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rplE

PMID:15690043

Experiment(s):EBI-882671

Protein

rplF

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rplI

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rplM

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rplO

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rplS

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rplV

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rplX

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rpmB

PMID:15690043

Experiment(s):EBI-882671

Protein

rpoB

PMID:15690043

Experiment(s):EBI-882671

Protein

rpoC

PMID:15690043

Experiment(s):EBI-882671

Protein

rpsA

PMID:15690043

Experiment(s):EBI-882671

Protein

rpsB

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rpsC

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rpsD

PMID:15690043

Experiment(s):EBI-882671

Protein

rpsE

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rpsG

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rpsM

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

secA

PMID:15690043

Experiment(s):EBI-882671

Protein

spoT

PMID:15690043

Experiment(s):EBI-882671

Protein

srmB

PMID:15690043

Experiment(s):EBI-882671

Protein

rnr

PMID:15690043

Experiment(s):EBI-882671, EBI-883997, EBI-890236

Protein

ybjD

PMID:15690043

Experiment(s):EBI-882671

Protein

ycbY

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

rluB

PMID:15690043

Experiment(s):EBI-882671, EBI-890236

Protein

yfiF

PMID:15690043

Experiment(s):EBI-882671, EBI-879491, EBI-890236

Protein

ygiF

PMID:15690043

Experiment(s):EBI-882671

Protein

yhiR

PMID:15690043

Experiment(s):EBI-882671

Protein

hupA

PMID:15690043

Experiment(s):EBI-890236

Protein

hupB

PMID:15690043

Experiment(s):EBI-890236

Protein

rplL

PMID:15690043

Experiment(s):EBI-890236

Protein

rplN

PMID:15690043

Experiment(s):EBI-890236

Protein

rplP

PMID:15690043

Experiment(s):EBI-890236

Protein

rplQ

PMID:15690043

Experiment(s):EBI-890236

Protein

rplR

PMID:15690043

Experiment(s):EBI-890236

Protein

rplT

PMID:15690043

Experiment(s):EBI-890236

Protein

rplU

PMID:15690043

Experiment(s):EBI-890236

Protein

rpsF

PMID:15690043

Experiment(s):EBI-890236

Protein

rpsN

PMID:15690043

Experiment(s):EBI-890236

Protein

rpsP

PMID:15690043

Experiment(s):EBI-890236

Protein

rpsR

PMID:15690043

Experiment(s):EBI-890236

Protein

rpsT

PMID:15690043

Experiment(s):EBI-890236

Protein

yibL

PMID:15690043

Experiment(s):EBI-890236

Protein

rluE

PMID:15690043

Experiment(s):EBI-890236

Protein

rplB

PMID:16606699

Experiment(s):EBI-1138798

Protein

rpoB

PMID:16606699

Experiment(s):EBI-1138798

Protein

rplA

PMID:16606699

Experiment(s):EBI-1138798

Protein

uspG

PMID:16606699

Experiment(s):EBI-1138798

Protein

rplU

PMID:16606699

Experiment(s):EBI-1138798

Protein

rpsM

PMID:16606699

Experiment(s):EBI-1138798

Protein

rpsG

PMID:16606699

Experiment(s):EBI-1138798

Protein

rpoC

PMID:16606699

Experiment(s):EBI-1138798

Protein

yedD

PMID:16606699

Experiment(s):EBI-1138798

Protein

ptsP

PMID:16606699

Experiment(s):EBI-1138798

Protein

rplQ

PMID:16606699

Experiment(s):EBI-1138798

Protein

secA

PMID:19402753

MALDI(Z-score):24.385638

Protein

rplP

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplE

PMID:19402753

LCMS(ID Probability):81.2 MALDI(Z-score):30.574216

Protein

hupB

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsM

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):17.503927

Protein

rplO

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):30.739506

Protein

rplN

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):2.281625

Protein

rpmB

PMID:19402753

LCMS(ID Probability):97.9 MALDI(Z-score):17.053160

Protein

rplI

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):37.856150

Protein

rpsF

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsR

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplT

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplU

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsT

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplS

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):19.395974

Protein

hupA

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsA

PMID:19402753

LCMS(ID Probability):98.1 MALDI(Z-score):28.357209

Protein

rplX

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):21.448910

Protein

rpsN

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):30.778814

Protein

rpsD

PMID:19402753

LCMS(ID Probability):80.8 MALDI(Z-score):35.042694

Protein

rplB

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):38.200016

Protein

rplQ

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsC

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):26.431199

Protein

rplF

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):37.043758

Protein

rplA

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):31.232887

Protein

rplR

PMID:19402753

LCMS(ID Probability):99.6

Protein

srmB

PMID:19402753

MALDI(Z-score):25.011900

Protein

rplD

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):23.361680

Protein

aidB

PMID:19402753

MALDI(Z-score):28.068367

Protein

ygiF

PMID:19402753

MALDI(Z-score):38.667044

Protein

rlmL

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):27.193001

Protein

pssA

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):28.761839

Protein

hrpA

PMID:19402753

MALDI(Z-score):18.919885

Protein

spoT

PMID:19402753

MALDI(Z-score):23.376874

Protein

rnr

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):32.605279

Protein

yhiR

PMID:19402753

MALDI(Z-score):39.672540

Protein

ybcJ

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):24.933504

Protein

yibL

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):3.839710

Protein

yfiF

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):39.923321

Protein

yncE

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):35.663691

Protein

ybjD

PMID:19402753

MALDI(Z-score):19.204851

Protein

rluE

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplL

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

cytoplasm

From EcoCyc[3]


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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 

MKTETPSVKI VAITADEAGQ RIDNFLRTQL KGVPKSMIYR ILRKGEVRVN KKRIKPEYKL
EAGDEVRIPP VRVAEREEEA VSPHLQKVAA LADVILYEDD HILVLNKPSG TAVHGGSGLS
FGVIEGLRAL RPEARFLELV HRLDRDTSGV LLVAKKRSAL RSLHEQLREK GMQKDYLALV
RGQWQSHVKS VQAPLLKNIL QSGERIVRVS QEGKPSETRF KVEERYAFAT LVRCSPVTGR
THQIRVHTQY AGHPIAFDDR YGDREFDRQL TEAGTGLNRL FLHAAALKFT HPGTGEVMRI
EAPMDEGLKR CLQKLRNAR
Length

319

Mol. Wt

36.026 kDa

pI

10.2 (calculated)

Extinction coefficient

15,930 - 16,180 (calc based on 7 Y, 1 W, and 2 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

20..66

PF01479 S4 domain

PMID:19920124

Domain

101..250

PF00849 RNA pseudouridylate synthase

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=rluC 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:16129049

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945637

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003675

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AA39

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11118

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11118

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945637

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001102

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1108

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

7.92E+02

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

12.929+/-0.082

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

Protein

E. coli K-12 MG1655

2439

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

386

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

1099

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

Transcription unit(s)

rluC

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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_000913:1144143..1144183 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:b1086 (EcoliWiki Page)

NCBI GEO profiles for rluC

microarray

GenExpDB:b1086 (EcoliWiki Page)

Summary of data for rluC 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 (1143945..1144215) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ10; Well:C7[7]

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Notes

Accessions Related to rluC Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG11118

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1108

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1086

EcoGene

EcoGene:EG11118

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001102

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003675

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

  • ENSANGP00000026660 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT1G56345 (score: 1.000; bootstrap: 56%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000004148 (score: 1.000; bootstrap: 79%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00038743 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00019498 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000013490 (score: 1.000; bootstrap: 87%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000007760 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040801-238 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040801-252 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0186558 (score: 1.000; bootstrap: 64%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0032256 (score: 1.000; bootstrap: 100%)
  • FBgn0051719 (score: 0.513)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA19422-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000008504 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000323288 (score: 1.000; bootstrap: 83%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000001974 (score: 1.000; bootstrap: 83%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000000356 (score: 1.000; bootstrap: 80%)

From Inparanoid:20070104

Mus musculus

  • MGI:1918066 (score: 1.000; bootstrap: 74%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000007605 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000014129 (score: 1.000; bootstrap: 78%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YDL036C (score: 1.000; bootstrap: 100%)
  • YOL066C (score: 1.000; bootstrap: 100%)
  • YGR169C (score: 0.121)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC18B112c (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000151729 (score: 1.000; bootstrap: 86%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00032201001 (score: 1.000; bootstrap: 86%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000040214 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

YCEC

From SHIGELLACYC

E. coli O157

YCEC

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)

PF01479 S4 domain

Panther (EcoliWiki Page)

PTHR10436:SF42

Superfamily (EcoliWiki Page)

SUPERFAMILY:55120

Superfamily (EcoliWiki Page)

SUPERFAMILY:55174

Pfam (EcoliWiki Page)

PF00849 RNA pseudouridylate synthase

EcoCyc

EcoCyc:EG11118

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11118

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001102

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1108

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003675

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 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 3.2 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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