dinB: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

dinB

Gene Synonym(s)

ECK0232, b0231, JW0221, dinP[1], dinP

Product Desc.

DNA polymerase IV (Y-family DNA polymerase; translesion DNA synthesis)[2][3]

DNA polymerase IV, capable of translesion synthesis; overexpression enhances mutagenesis; mediates targeted mutagenesis by 4-NQO; intrinsic AP lyase activity[4]

Product Synonyms(s)

DNA polymerase IV[1], B0231[2][1], DinB[2][1], DinP[2][1] , dinP, ECK0232, JW0221, b0231

Function from GO

<GO_nr />

Knock-Out Phenotype

Sensitivity to 4-NQO [5]

Regulation/Expression

transcription unit(s): dinB[2] dinB yafNOP[6]

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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Part of dinB-yafNOP operon. LexA regulon. The phenotype of some dinB alleles to reduce spontaneous mutations may be due to polarity effects.[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

dinB

Mnemonic

damage inducible Damage inducible

Synonyms

ECK0232, b0231, JW0221, dinP[1], dinP

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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

5.41 minutes 

MG1655: 250898..251953
<gbrowseImage> name=NC_000913:250898..251953 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 255461..256516
<gbrowseImage> name=NC_012967:255461..256516 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 250897..251952
<gbrowseImage> name=NC_012759:250897..251952 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 250898..251953
<gbrowseImage> name=NC_007779:250898..251953 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 225002..226057
<gbrowseImage> name=NC_010473:225002..226057 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

dinB(del) (Keio:JW0221)

deletion

deletion

PMID:16738554

Shigen

CGSC8456[7]

dinP::Tn5KAN-I-SceI (FB20062)

Insertion at nt 89 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20062

does not contain pKD46

dinP::Tn5KAN-I-SceI (FB20063)

Insertion at nt 89 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20063

contains pKD46

dinBA310S

A310S

(in strain: ECOR 57B2, ECOR 59B2, ECOR 60B2 and ECOR 62B2)

Strain variation; seeded from UniProt:Q47155

dinBD321N

D321N

(in strain: ECOR 35D)

Strain variation; seeded from UniProt:Q47155

dinBD8A,H

D8A,H

Loss of function

seeded from UniProt:Q47155

dinBR49A,F

R49A,F

Loss of function

seeded from UniProt:Q47155

dinBD103A,N

D103A,N

Loss of function

seeded from UniProt:Q47155

dinBE104A

E104A

Loss of function

seeded from UniProt:Q47155

dinBM210I

M210I

(in strain: ECOR 37UG, ECOR 45B1, ECOR 51B2, ECOR 52B2, ECOR 58B1 and ECOR 70B1)

Strain variation; seeded from UniProt:Q47155

dinBM210T

M210T

(in strain: ECOR 35D, ECOR 46D, ECOR 49D, ECOR 50D, ECOR 57B2, ECOR 59B2, ECOR 60B2 and ECOR 62B2)

Strain variation; seeded from UniProt:Q47155

dinBR225C

R225C

(in strain: ECOR 59B2 and ECOR 60B2)

Strain variation; seeded from UniProt:Q47155

dinBERR36ARG

ERR36ARG

(in strain: ECOR 45B1)

Strain variation; seeded from UniProt:Q47155

dinBQ124K

Q124K

(in strain: ECOR 35D)

Strain variation; seeded from UniProt:Q47155

dinBN132S

N132S

(in strain: ECOR 34B1 and ECOR 37UG)

Strain variation; seeded from UniProt:Q47155

dinBQ135H

Q135H

(in strain: ECOR 70B1)

Strain variation; seeded from UniProt:Q47155

dinBP170S

P170S

(in strain: ECOR 37UG)

Strain variation; seeded from UniProt:Q47155

dinBA171T

A171T

(in strain: ECOR 45B1, ECOR 46D, ECOR 49D and ECOR 50D)

Strain variation; seeded from UniProt:Q47155

dinBL176F

L176F

(in strain: ECOR 37UG)

Strain variation; seeded from UniProt:Q47155

dinBG201S

G201S

(in strain: ECOR 59B2)

Strain variation; seeded from UniProt:Q47155

dinB10

xx

PMID:

SMR

we like this mutation a lot

F172A

PMID:18158902

defective in UMuD interaction

dinB749(del)::kan

PMID:16738554

CGSC:100600


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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

JW0221

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCGTAAAATCATTCATGTGGA

Primer 2:CCTAATCCCAGCACCAGTTGTCT

8F9

Kohara Phage

Genobase

PMID:3038334

yafC502::Tn10

Linked marker

CAG18436 = CGSC7328[7]

est. P1 cotransduction: 50% [8]
Synonyms:zae-502::Tn10

proA81::Tn10

Linked marker

CAG18447 = CGSC7330[7]

est. P1 cotransduction: 74% [8]

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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:G6115

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13141

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002735

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:944922

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2935

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000789

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

DinB

Synonyms

DNA polymerase IV[1], B0231[2][1], DinB[2][1], DinP[2][1] , dinP, ECK0232, JW0221, b0231

Product description

DNA polymerase IV (Y-family DNA polymerase; translesion DNA synthesis)[2][3]

DNA polymerase IV, capable of translesion synthesis; overexpression enhances mutagenesis; mediates targeted mutagenesis by 4-NQO; intrinsic AP lyase activity[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:0000287

magnesium ion binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01113

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:0003677

DNA binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01113

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:0003684

damaged DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001126

F

Seeded from EcoCyc (v14.0)

complete

GO:0003684

damaged DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017961

F

Seeded from EcoCyc (v14.0)

complete

GO:0003684

damaged DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017962

F

Seeded from EcoCyc (v14.0)

complete

GO:0003684

damaged DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017963

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01113

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001126

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017961

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017962

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017963

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.7.7.7

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0239

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01113

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:0006260

DNA replication

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0235

P

Seeded from EcoCyc (v14.0)

complete

GO:0006261

DNA-dependent DNA replication

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01113

P

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01113

P

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001126

P

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017961

P

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017962

P

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017963

P

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0234

P

Seeded from EcoCyc (v14.0)

complete

GO:0006974

response to DNA damage stimulus

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0227

P

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0016779

nucleotidyltransferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0548

F

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc (v14.0)

complete

GO:0006974

response to DNA damage stimulus

PMID:11967071

IEP: Inferred from Expression Pattern

P

complete

GO:0003887

DNA-directed DNA polymerase activity

PMID:10488344

IDA: Inferred from Direct Assay

F

complete

GO:0000731

DNA synthesis involved in DNA repair

PMID:10488344

IDA: Inferred from Direct Assay

P

complete

GO:0005737

cytoplasm

PMID:10488344

IDA: Inferred from Direct Assay

C

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

UmuD

PMID:18158902

RecA*

PMID:18158902


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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 

MRKIIHVDMD CFFAAVEMRD NPALRDIPIA IGGSRERRGV ISTANYPARK FGVRSAMPTG
MALKLCPHLT LLPGRFDAYK EASNHIREIF SRYTSRIEPL SLDEAYLDVT DSVHCHGSAT
LIAQEIRQTI FNELQLTASA GVAPVKFLAK IASDMNKPNG QFVITPAEVP AFLQTLPLAK
IPGVGKVSAA KLEAMGLRTC GDVQKCDLVM LLKRFGKFGR ILWERSQGID ERDVNSERLR
KSVGVERTMA EDIHHWSECE AIIERLYPEL ERRLAKVKPD LLIARQGVKL KFDDFQQTTQ
EHVWPRLNKA DLIATARKTW DERRGGRGVR LVGLHVTLLD PQMERQLVLG L
Length

351

Mol. Wt

39.516 kDa

pI

9.5 (calculated)

Extinction coefficient

29,450 - 30,200 (calc based on 5 Y, 4 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

7..154

PF00817 impB/mucB/samB family

PMID:19920124

Domain

165..197

PF11798 IMS family HHH motif

PMID:19920124

Domain

210..322

PF11799 impB/mucB/samB family C-terminal

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=dinB 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:16128217

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:944922

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000789

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:Q47155

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6115

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13141

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:944922

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002735

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2935

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

47

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

20

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

13a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

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)

dinB yafNOP

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Figure courtesy of RegulonDB

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Notes

Transcription is repressed by LexA [9] Transcription in stationary phase is RpoS-dependent [10]

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:250878..250918 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

DinB protein levels are GroEL-dependent [11]

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

GenExpDB:b0231 (EcoliWiki Page)

Summary of data for dinB from multiple microarray studies

microarray

PMID: 11333217

UV induction

microarray

GEO Profiles:b0231 (EcoliWiki Page)

NCBI GEO profiles for dinB

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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 (250744..250966) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ12; Well:G7[12]

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Notes

Accessions Related to dinB Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G6115

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2935

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0231

EcoGene

EcoGene:EG13141

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002735

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000789

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

Anopheles gambiae

  • ENSANGP00000004566 (score: 1.000; bootstrap: 78%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000013231 (score: 1.000; bootstrap: 66%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT1G49980 (score: 1.000; bootstrap: 51%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000005265 (score: 1.000; bootstrap: 94%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00041372 (score: 1.000; bootstrap: 84%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00017696 (score: 1.000; bootstrap: 86%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000013822 (score: 1.000; bootstrap: 86%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000019294 (score: 1.000; bootstrap: 63%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-050417-376 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-050417-377 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0187302 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0035150 (score: 1.000; bootstrap: 72%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA11465-PA (score: 1.000; bootstrap: 76%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000027018 (score: 1.000; bootstrap: 84%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000353425 (score: 1.000; bootstrap: 54%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000008071 (score: 1.000; bootstrap: 94%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000002591 (score: 1.000; bootstrap: 92%)

From Inparanoid:20070104

Mus musculus

  • MGI:1349767 (score: 1.000; bootstrap: 63%)
  • MGI:1929074 (score: 1.000; bootstrap: 66%)

From Inparanoid:20070104

Oryza gramene

  • Q654Y6 (score: 1.000; bootstrap: 51%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000046606 (score: 1.000; bootstrap: 55%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000029244 (score: 1.000; bootstrap: 89%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YOR346W (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPCC5537c (score: 1.000; bootstrap: 83%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000163834 (score: 1.000; bootstrap: 68%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00028682001 (score: 1.000; bootstrap: 80%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000031908 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Shigella flexneri

DINP

From SHIGELLACYC

E. coli O157

DINP

From ECOO157CYC

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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)

PF00817 impB/mucB/samB family

Panther (EcoliWiki Page)

PTHR11076:SF12

Superfamily (EcoliWiki Page)

SUPERFAMILY:56672

Superfamily (EcoliWiki Page)

SUPERFAMILY:100879

Pfam (EcoliWiki Page)

PF11798 IMS family HHH motif

Pfam (EcoliWiki Page)

PF11799 impB/mucB/samB family C-terminal

EcoCyc

EcoCyc:G6115

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13141

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002735

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2935

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000789

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 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. ↑ Jarosz, DF et al. (2006) A single amino acid governs enhanced activity of DinB DNA polymerases on damaged templates. Nature 439 225-8 PubMed
  6. ↑ Courcelle, J et al. (2001) Comparative gene expression profiles following UV exposure in wild-type and SOS-deficient Escherichia coli. Genetics 158 41-64 PubMed
  7. ↑ 7.0 7.1 7.2 CGSC: The Coli Genetics Stock Center
  8. ↑ 8.0 8.1 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).
  9. ↑ Kenyon, CJ & Walker, GC (2005) DNA-damaging agents stimulate gene expression at specific loci in Escherichia coli. 1980. DNA Repair (Amst.) 4 1049-53 PubMed
  10. ↑ Layton, JC & Foster, PL (2003) Error-prone DNA polymerase IV is controlled by the stress-response sigma factor, RpoS, in Escherichia coli. Mol. Microbiol. 50 549-61 PubMed
  11. ↑ Layton, JC & Foster, PL (2005) Error-prone DNA polymerase IV is regulated by the heat shock chaperone GroE in Escherichia coli. J. Bacteriol. 187 449-57 PubMed
  12. ↑ 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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