nei: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

nei

Gene Synonym(s)

ECK0703, b0714, JW0704[1], JW0704

Product Desc.

endonuclease VIII[2][3]

DNA glycosylase/apurinic lyase, deoxyinosine-specific; endonuclease VIII[4]

Product Synonyms(s)

endonuclease VIII[1], 5-formyluracil/5-hydroxymethyluracil DNA glycosylase[1], B0714[2][1], Nei[2][1] , ECK0703, JW0704, b0714

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ybgIJKL-nei[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

nei

Mnemonic

Endonuclease VIII

Synonyms

ECK0703, b0714, JW0704[1], JW0704

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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

16.06 minutes 

MG1655: 745158..745949
<gbrowseImage> name=NC_000913:745158..745949 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 726720..727511
<gbrowseImage> name=NC_012967:726720..727511 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 647918..648709
<gbrowseImage> name=NC_012759:647918..648709 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 746357..747148
<gbrowseImage> name=NC_007779:746357..747148 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 797750..798541
<gbrowseImage> name=NC_010473:797750..798541 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

745161

Edman degradation

PMID:9171429


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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

Δnei (Keio:JW0704)

deletion

deletion

PMID:16738554

Shigen
CGSC8781[5]

neiD129N

D129N

Reduced glycosylase activity. No effect on AP lyase activity

seeded from UniProt:P50465

nei::Tn5KAN-2 (FB20221)

Insertion at nt 403 in Minus orientation

PMID:15262929

E. coli Genome Project:FB20221

does not contain pKD46

neiP2T

P2T

Loss of glycosylase and AP lyase activity

seeded from UniProt:P50465

neiE6Q

E6Q

Reduced glycosylase activity. No effect on AP lyase activity

seeded from UniProt:P50465

neiK53A

K53A

Loss of DNA cleavage at sites containing oxidized pyrimidine. No effect on AP lyase activity

seeded from UniProt:P50465

neiD160N

D160N

No effect on glycosylase and AP lyase activity

seeded from UniProt:P50465

neiE174Q

E174Q

Loss of glycosylase activity. No effect on AP lyase activity

seeded from UniProt:P50465

neiR213A

R213A

Slightly reduced activity

seeded from UniProt:P50465

neiR253A

R253A

Reduced DNA cleavage at sites containing oxidized pyrimidine. No effect on AP lyase activity

seeded from UniProt:P50465

neiE3A,Q

E3A,Q

Loss of glycosylase activity. No effect on AP lyase activity

seeded from UniProt:P50465

neiE3D

E3D

Much reduced glycosylase activity. No effect on AP lyase activity

seeded from UniProt:P50465

Δnei-764::kan

PMID:16738554

CGSC:102044


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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

JW0704

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCCTGAAGGCCCGGAGATCCG

Primer 2:CCGTGCTGGCAGCCAGGGCACCA

25C10S

Kohara Phage

Genobase

PMID:3038334

asnB3057::Tn10

Linked marker

CAG18433 = CGSC7349[5]

est. P1 cotransduction: 14% [6]
Synonyms:zbf-3057::Tn10 nnnThe Tn10 in CAG18433 is inserted in the asnB regulatory region, 4 bp before the start of the asnB ORF.

nadA57::Tn10

Linked marker

CAG12147 = CGSC7351[5]

est. P1 cotransduction: 25% [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:G6383

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13237

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002983

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945320

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3026

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002433

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

Nei

Synonyms

endonuclease VIII[1], 5-formyluracil/5-hydroxymethyluracil DNA glycosylase[1], B0714[2][1], Nei[2][1] , ECK0703, JW0704, b0714

Product description

endonuclease VIII[2][3]

DNA glycosylase/apurinic lyase, deoxyinosine-specific; endonuclease VIII[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:0000703

oxidized pyrimidine base lesion DNA N-glycosylase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01253

F

Seeded from EcoCyc (v14.0)

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR010979

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015887

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:IPR012319

F

Seeded from EcoCyc (v14.0)

complete

GO:0003684

damaged DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015886

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR010663

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0511

F

Seeded from EcoCyc (v14.0)

complete

GO:0003906

DNA-(apurinic or apyrimidinic site) lyase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01253

F

Seeded from EcoCyc (v14.0)

complete

GO:0003906

DNA-(apurinic or apyrimidinic site) lyase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000214

F

Seeded from EcoCyc (v14.0)

complete

GO:0003906

DNA-(apurinic or apyrimidinic site) lyase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012319

F

Seeded from EcoCyc (v14.0)

complete

GO:0003906

DNA-(apurinic or apyrimidinic site) lyase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015886

F

Seeded from EcoCyc (v14.0)

complete

GO:0003906

DNA-(apurinic or apyrimidinic site) lyase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015887

F

Seeded from EcoCyc (v14.0)

complete

GO:0003906

DNA-(apurinic or apyrimidinic site) lyase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:4.2.99.18

F

Seeded from EcoCyc (v14.0)

complete

GO:0003906

DNA-(apurinic or apyrimidinic site) lyase activity

PMID:10862773

IDA: Inferred from Direct Assay

F

complete

GO:0006281

DNA repair

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01253

P

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

PMID:16145054

IDA: Inferred from Direct Assay

F

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000214

P

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015887

P

Seeded from EcoCyc (v14.0)

complete

GO:0003684

damaged DNA binding

PMID:17002303

IDA: Inferred from Direct Assay

F

complete

GO:0003684

damaged DNA binding

PMID:10862773

IDA: Inferred from Direct Assay

F

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:0006284

base-excision repair

PMID:17002303

IDA: Inferred from Direct Assay

P

complete

GO:0006284

base-excision repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012319

P

Seeded from EcoCyc (v14.0)

complete

GO:0003906

DNA-(apurinic or apyrimidinic site) lyase activity

PMID:17002303

IDA: Inferred from Direct Assay

F

complete

GO:0006289

nucleotide-excision repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015886

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:0008152

metabolic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0326

P

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000214

F

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012319

F

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015886

F

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015887

F

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0862

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc (v14.0)

complete

GO:0016798

hydrolase activity, acting on glycosyl bonds

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0326

F

Seeded from EcoCyc (v14.0)

complete

GO:0016799

hydrolase activity, hydrolyzing N-glycosyl compounds

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000214

F

Seeded from EcoCyc (v14.0)

complete

GO:0016799

hydrolase activity, hydrolyzing N-glycosyl compounds

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012319

F

Seeded from EcoCyc (v14.0)

complete

GO:0016799

hydrolase activity, hydrolyzing N-glycosyl compounds

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015886

F

Seeded from EcoCyc (v14.0)

complete

GO:0016799

hydrolase activity, hydrolyzing N-glycosyl compounds

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015887

F

Seeded from EcoCyc (v14.0)

complete

GO:0016829

lyase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0456

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

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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

hupB

PMID:15690043

Experiment(s):EBI-882379

Protein

lpdA

PMID:15690043

Experiment(s):EBI-882379

Protein

groL

PMID:15690043

Experiment(s):EBI-882379

Protein

rplD

PMID:15690043

Experiment(s):EBI-882379

Protein

rplU

PMID:15690043

Experiment(s):EBI-882379

Protein

rpmB

PMID:15690043

Experiment(s):EBI-882379

Protein

rpsD

PMID:15690043

Experiment(s):EBI-882379

Protein

rpsN

PMID:15690043

Experiment(s):EBI-882379

Protein

slyD

PMID:15690043

Experiment(s):EBI-882379

Protein

nadE

PMID:16606699

Experiment(s):EBI-1137778

Protein

prs

PMID:16606699

Experiment(s):EBI-1137778

Protein

groL

PMID:16606699

Experiment(s):EBI-1137778

Protein

rplU

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsD

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpmB

PMID:19402753

LCMS(ID Probability):99.6

Protein

groL

PMID:19402753

LCMS(ID Probability):99.6

Protein

slyD

PMID:19402753

LCMS(ID Probability):99.6

Protein

groS

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplD

PMID:19402753

LCMS(ID Probability):99.6

Protein

hupB

PMID:19402753

LCMS(ID Probability):99.6

Protein

nfi

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):21.173437

DNA

8-oxoG containing substrates

Substrate

PMID:17002303

X-linking

DNA

Tetrahydrofuran analogs

Substrate-processes to a gap

PMID:17002303

Glycosylase assay

DNA

cis-(5S,6R)-thymine glycol (TgA)

Substrate

PMID:17002303

Binding assays

DNA

cis-(5R,6S)-thymine glycol (TgC)

Substrate

PMID:17002303

Binding assays

DNA

5,6-dihydrouracil (DHU)

Substrate

PMID:17002303

Binding assay

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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 

MPEGPEIRRA ADNLEAAIKG KPLTDVWFAF PQLKPYQSQL IGQHVTHVET RGKALLTHFS
NDLTLYSHNQ LYGVWRVVDT GEEPQTTRVL RVKLQTADKT ILLYSASDIE MLTPEQLTTH
PFLQRVGPDV LDPNLTPEVV KERLLSPRFR NRQFAGLLLD QAFLAGLGNY LRVEILWQVG
LTGNHKAKDL NAAQLDALAH ALLEIPRFSY ATRGQVDENK HHGALFRFKV FHRDGEPCER
CGSIIEKTTL SSRPFYWCPG CQH
Length

263

Mol. Wt

29.845 kDa

pI

8.0 (calculated)

Extinction coefficient

32,430 - 32,930 (calc based on 7 Y, 4 W, and 4 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:P50465

Domain

2..111

PF01149 Formamidopyrimidine-DNA glycosylase N-terminal domain

PMID:19920124

Domain

235..263

PF06827 Zinc finger found in FPG and IleRS

PMID:19920124

Domain

126..215

PF06831 Formamidopyrimidine-DNA glycosylase H2TH 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=nei taxon=562,83333 </beststructure>

Models

View models at:

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</protect>

Structure figures

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</protect>

Notes

  • Kinetic properties of Nei are described in [7] and [8]
  • Structures of active and inactive mutants described in [9]
  • Catalytically important residues E2 and R252

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:16128689

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945320

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002433

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P50465

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6383

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13237

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945320

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002983

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3026

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Expression

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

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

0.885+/-0.037

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.019595449

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

248

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

93

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

253

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)

ybgIJKL-nei

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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_000913:745138..745178 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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

</protect>

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:b0714 (EcoliWiki Page)

NCBI GEO profiles for nei

microarray

GenExpDB:b0714 (EcoliWiki Page)

Summary of data for nei 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 nei Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G6383

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3026

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0714

EcoGene

EcoGene:EG13237

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002983

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002433

Escherichia coli str. K-12 substr. MG1655

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Links

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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

Monodelphis domestica

  • ENSMODP00000004671 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000132760 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

NEI

From SHIGELLACYC

E. coli O157

NEI

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)

PF01149 Formamidopyrimidine-DNA glycosylase N-terminal domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:46946

Panther (EcoliWiki Page)

PTHR22993:SF4

Superfamily (EcoliWiki Page)

SUPERFAMILY:57716

Superfamily (EcoliWiki Page)

SUPERFAMILY:81624

Pfam (EcoliWiki Page)

PF06827 Zinc finger found in FPG and IleRS

Pfam (EcoliWiki Page)

PF06831 Formamidopyrimidine-DNA glycosylase H2TH domain

EcoCyc

EcoCyc:G6383

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13237

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002983

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3026

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002433

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 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. ↑ Hazra, TK et al. (2000) Characterization of a novel 8-oxoguanine-DNA glycosylase activity in Escherichia coli and identification of the enzyme as endonuclease VIII. J. Biol. Chem. 275 27762-7 PubMed
  8. ↑ Kropachev, KY et al. (2006) Catalytic mechanism of Escherichia coli endonuclease VIII: roles of the intercalation loop and the zinc finger. Biochemistry 45 12039-49 PubMed
  9. ↑ Golan, G et al. (2005) Structure of the uncomplexed DNA repair enzyme endonuclease VIII indicates significant interdomain flexibility. Nucleic Acids Res. 33 5006-16 PubMed

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