topB: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

topB

Gene Synonym(s)

ECK1761, b1763, JW1752, mutR[1], mutR

Product Desc.

DNA topoisomerase III[2][3]

Topoisomerase III; mutR phenotype is decreased deletion formation between short repeats[4]

Product Synonyms(s)

DNA topoisomerase III[1], MutR[2][1], B1763[2][1], TopB[2][1], Topo III[2][1] , ECK1761, JW1752, mutR, b1763

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ydjA-selD-topB[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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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

topB

Mnemonic

Topoisomerase

Synonyms

ECK1761, b1763, JW1752, mutR[1], mutR

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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

39.72 minutes 

MG1655: 1844984..1843023
<gbrowseImage> name=NC_000913:1843023..1844984 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1824188..1822227
<gbrowseImage> name=NC_012967:1822227..1824188 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1735082..1737043
<gbrowseImage> name=NC_012759:1735082..1737043 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1848674..1846713
<gbrowseImage> name=NC_007779:1846713..1848674 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1935555..1933594
<gbrowseImage> name=NC_010473:1933594..1935555 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

1843023

Edman degradation

PMID:2553698


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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

ΔtopB (Keio:JW1752)

deletion

PMID:16738554

Shigen
CGSC9474[5]

topB::Tn5KAN-2 (FB20451)

Insertion at nt 943 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20451

contains pKD46

topB77::Tn5

CGSC:80894

ΔtopB761::kan

PMID:16738554

CGSC:103174

ΔtopB::aphA

PMID:11493711

ΔtopA ΔtopB

Growth Phenotype

  • Highly filamented over time
  • Aberrant nucleoid structures

PMID:11493711

depletion experiment- contained complementing topB expressing plasmid

ΔtopA ΔtopB ΔrecA

  • no chromosomal segregation defect
  • partially suppressed filamentation

PMID:11493711

complements the ΔtopA ΔtopB phenotype

ΔtopB::kan parE(ts)

Growth Phenotype

synthetically lethal

PMID:16164551

ΔtopB::kan parC(ts)

Growth Phenotype

synthetically lethal

PMID:16164551

ΔtopBruvC53

deletion

Sensitivity to

  • ~20 times more sensitive to UV irradiation than the single ruvC53 mutation alone.
  • MMC

PMID:16164551

ΔtopBΔtopA

chromosomal segregation defect is due to a defect in recombination, not decatenation

PMID:11493711


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Notes

topB is cool


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

JW1752

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCGGTTGTTTATTGCCGAAAA

Primer 2:CCgGCTATCGCCCCGCTTCCGAC

4B8

Kohara Phage

Genobase

PMID:3038334

12H7

Kohara Phage

Genobase

PMID:3038334

zdj-276::Tn10

Linked marker

CAG18464 = CGSC7387[5]

est. P1 cotransduction: 70% [6]
Synonyms:zdi-276::Tn10

zea-225::Tn10

Linked marker

CAG18465 = CGSC7388[5]

est. P1 cotransduction: 36% [6]
Synonyms:zdj-225::Tn10

pTBE302

Plasmid Clone

  • pBAD- regulated XPN of topB
  • PMID:11493711
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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:EG11014

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11014

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001003

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946141

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1007

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005869

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

TopB

Synonyms

DNA topoisomerase III[1], MutR[2][1], B1763[2][1], TopB[2][1], Topo III[2][1] , ECK1761, JW1752, mutR, b1763

Product description

DNA topoisomerase III[2][3]

Topoisomerase III; mutR phenotype is decreased deletion formation between short repeats[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:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0003917

DNA topoisomerase type I activity

PMID:6326814

IDA: Inferred from Direct Assay

F

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006154

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000380

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003601

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003602

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005738

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013497

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013825

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0003916

DNA topoisomerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003601

F

Seeded from EcoCyc (v14.0)

complete

GO:0003916

DNA topoisomerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003602

F

Seeded from EcoCyc (v14.0)

complete

GO:0003916

DNA topoisomerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005738

F

Seeded from EcoCyc (v14.0)

complete

GO:0003916

DNA topoisomerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013497

F

Seeded from EcoCyc (v14.0)

complete

GO:0003916

DNA topoisomerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013825

F

Seeded from EcoCyc (v14.0)

complete

GO:0007059

chromosome segregation

PMID:11493711

IGI: Inferred from Genetic Interaction

P

Missing: with/from

GO:0003916

DNA topoisomerase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0799

F

Seeded from EcoCyc (v14.0)

complete

GO:0003917

DNA topoisomerase type I activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000380

F

Seeded from EcoCyc (v14.0)

complete

GO:0003917

DNA topoisomerase type I activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:5.99.1.2

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:0005694

chromosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000380

C

Seeded from EcoCyc (v14.0)

complete

GO:0005694

chromosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003601

C

Seeded from EcoCyc (v14.0)

complete

GO:0005694

chromosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003602

C

Seeded from EcoCyc (v14.0)

complete

GO:0005694

chromosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005738

C

Seeded from EcoCyc (v14.0)

complete

GO:0005694

chromosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013497

C

Seeded from EcoCyc (v14.0)

complete

GO:0005694

chromosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013825

C

Seeded from EcoCyc (v14.0)

complete

GO:0006259

DNA metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006154

P

Seeded from EcoCyc (v14.0)

complete

GO:0006265

DNA topological change

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000380

P

Seeded from EcoCyc (v14.0)

complete

GO:0006265

DNA topological change

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003601

P

Seeded from EcoCyc (v14.0)

complete

GO:0006265

DNA topological change

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003602

P

Seeded from EcoCyc (v14.0)

complete

GO:0006265

DNA topological change

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005738

P

Seeded from EcoCyc (v14.0)

complete

GO:0006265

DNA topological change

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013497

P

Seeded from EcoCyc (v14.0)

complete

GO:0006265

DNA topological change

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013825

P

Seeded from EcoCyc (v14.0)

complete

GO:0006268

DNA unwinding involved in replication

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013825

P

Seeded from EcoCyc (v14.0)

complete

GO:0016853

isomerase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0413

F

Seeded from EcoCyc (v14.0)

complete

GO:0006310

DNA recombination

PMID:16164551

IMP: Inferred from Mutant Phenotype

P

involved in processing intermediates in an alternate pathway to RuvC

complete

GO:0051304

chromosome separation

PMID:12509418

IMP: Inferred from Mutant Phenotype

P

very efficient in removing precatenanes

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

aceE

PMID:15690043

Experiment(s):EBI-888082

Protein

aceF

PMID:15690043

Experiment(s):EBI-888082, EBI-893650

Protein

lpdA

PMID:15690043

Experiment(s):EBI-888082, EBI-893650

Protein

recD

PMID:15690043

Experiment(s):EBI-888082

Protein

recQ
  • PMID:15690043
  • PMID:10360177

Experiment(s):EBI-888082

Protein

rplC

PMID:15690043

Experiment(s):EBI-888082, EBI-893650

Protein

rpsB

PMID:15690043

Experiment(s):EBI-888082, EBI-893650

Protein

rpsC

PMID:15690043

Experiment(s):EBI-888082

Protein

topA

PMID:15690043

Experiment(s):EBI-888082, EBI-888130

Protein

ccmB

PMID:15690043

Experiment(s):EBI-893650

Protein

rplU

PMID:15690043

Experiment(s):EBI-893650

Protein

rplV

PMID:15690043

Experiment(s):EBI-893650

Protein

rplX

PMID:15690043

Experiment(s):EBI-893650

Protein

rpmB

PMID:15690043

Experiment(s):EBI-893650

Protein

rpmC

PMID:15690043

Experiment(s):EBI-893650

Protein

rpmG

PMID:15690043

Experiment(s):EBI-893650

Protein

rpsE

PMID:15690043

Experiment(s):EBI-893650

Protein

rpsN

PMID:15690043

Experiment(s):EBI-893650

Protein

rpsP

PMID:15690043

Experiment(s):EBI-893650

Protein

hscC

PMID:15690043

Experiment(s):EBI-893650

Protein

abgT

PMID:15690043

Experiment(s):EBI-893650

Protein

yjcD

PMID:15690043

Experiment(s):EBI-893650

Protein

gcl

PMID:15690043

Experiment(s):EBI-893650

Protein

hupA

PMID:15690043

Experiment(s):EBI-893650

Protein

rplD

PMID:15690043

Experiment(s):EBI-893650

Protein

rplJ

PMID:15690043

Experiment(s):EBI-893650

Protein

rplL

PMID:15690043

Experiment(s):EBI-893650

Protein

rplM

PMID:15690043

Experiment(s):EBI-893650

Protein

rplS

PMID:15690043

Experiment(s):EBI-893650

Protein

rpsP

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplU

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsC

PMID:19402753

LCMS(ID Probability):97.9 MALDI(Z-score):9.123007

Protein

rplS

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753

LCMS(ID Probability):99.3

Protein

rplD

PMID:19402753

LCMS(ID Probability):99.6

Protein

topA

PMID:19402753

MALDI(Z-score):25.567635

Protein

ssb

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):39.717962

Protein

recQ

PMID:19402753

MALDI(Z-score):27.205314

Protein

gcl

PMID:19402753

LCMS(ID Probability):99.0

Protein

abgT

PMID:19402753

LCMS(ID Probability):99.6

Protein

yjcD

PMID:19402753

LCMS(ID Probability):99.6

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</protect>

Notes

  • A model for Topo III's role in the processing of recombination intermediates may be found in Lopez et al. (2005)[7].

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 

MRLFIAEKPS LARAIADVLP KPHRKGDGFI ECGNGQVVTW CIGHLLEQAQ PDAYDSRYAR
WNLADLPIVP EKWQLQPRPS VTKQLNVIKR FLHEASEIVH AGDPDREGQL LVDEVLDYLQ
LAPEKRQQVQ RCLINDLNPQ AVERAIDRLR SNSEFVPLCV SALARARADW LYGINMTRAY
TILGRNAGYQ GVLSVGRVQT PVLGLVVRRD EEIENFVAKD FFEVKAHIVT PADERFTAIW
QPSEACEPYQ DEEGRLLHRP LAEHVVNRIS GQPAIVTSYN DKRESESAPL PFSLSALQIE
AAKRFGLSAQ NVLDICQKLY ETHKLITYPR SDCRYLPEEH FAGRHAVMNA ISVHAPDLLP
QPVVDPDIRN RCWDDKKVDA HHAIIPTARS SAINLTENEA KVYNLIARQY LMQFCPDAVF
RKCVIELDIA KGKFVAKARF LAEAGWRTLL GSKERDEEND GTPLPVVAKG DELLCEKGEV
VERQTQPPRH FTDATLLSAM TGIARFVQDK DLKKILRATD GLGTEATRAG IIELLFKRGF
LTKKGRYIHS TDAGKALFHS LPEMATRPDM TAHWESVLTQ ISEKQCRYQD FMQPLVGTLY
QLIDQAKRTP VRQFRGIVAP GSGGSADKKK AAPRKRSAKK SPPADEVGSG AIA
Length

653

Mol. Wt

73.217 kDa

pI

8.3 (calculated)

Extinction coefficient

67,840 - 69,340 (calc based on 16 Y, 8 W, and 12 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

153..593

PF01131 DNA topoisomerase

PMID:19920124

Domain

1..135

PF01751 Toprim 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=topB taxon=562,83333 </beststructure>

Models

View models at:

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</protect>

Structure figures

<protect>

</protect>

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:16129717

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946141

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005869

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P14294

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11014

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11014

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946141

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001003

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1007

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

Ecoli K-12

8.997+/-0.083

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.051759306

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

419

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

100

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

200

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)

ydjA-selD-topB

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Figure courtesy of RegulonDB

</protect>

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_000913:1844964..1845004 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:b1763 (EcoliWiki Page)

NCBI GEO profiles for topB

microarray

GenExpDB:b1763 (EcoliWiki Page)

Summary of data for topB 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 topB Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG11014

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1007

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1763

EcoGene

EcoGene:EG11014

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001003

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005869

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

  • ENSANGP00000001725 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT5G63920 (score: 1.000; bootstrap: 100%)
  • AT2G32000 (score: 0.143)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00004532001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000027497 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

TOPB

From SHIGELLACYC

E. coli O157

TOPB

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:56712

Pfam (EcoliWiki Page)

PF01131 DNA topoisomerase

Pfam (EcoliWiki Page)

PF01751 Toprim domain

EcoCyc

EcoCyc:EG11014

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11014

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001003

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1007

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005869

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 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. ↑ Lopez, CR et al. (2005) A role for topoisomerase III in a recombination pathway alternative to RuvABC. Mol. Microbiol. 58 80-101 PubMed

Categories

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