nei:Gene Product(s)
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| Nomenclature | Function | Interactions | Localization | Sequence | Domains | Structure | Resources | Accessions | Links | References | Suggestions |
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 |
DNA glycosylase/apurinic lyase, deoxyinosine-specific; endonuclease VIII[4] |
| EC number (for enzymes) | |
| edit table |
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Notes
Function
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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 |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003676 |
nucleic acid binding |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003677 |
DNA binding |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003677 |
DNA binding |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003684 |
damaged DNA binding |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003684 |
damaged DNA binding |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003824 |
catalytic activity |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003824 |
catalytic activity |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003906 |
DNA-(apurinic or apyrimidinic site) lyase activity |
GOA:hamap |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003906 |
DNA-(apurinic or apyrimidinic site) lyase activity |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003906 |
DNA-(apurinic or apyrimidinic site) lyase activity |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003906 |
DNA-(apurinic or apyrimidinic site) lyase activity |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003906 |
DNA-(apurinic or apyrimidinic site) lyase activity |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003906 |
DNA-(apurinic or apyrimidinic site) lyase activity |
GOA:spec |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003906 |
DNA-(apurinic or apyrimidinic site) lyase activity |
IDA: Inferred from Direct Assay |
F |
complete | ||||
| GO:0006281 |
DNA repair |
GOA:hamap |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0008270 |
zinc ion binding |
IDA: Inferred from Direct Assay |
F |
complete | ||||
| GO:0006281 |
DNA repair |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0006281 |
DNA repair |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003684 |
damaged DNA binding |
IDA: Inferred from Direct Assay |
F |
complete | ||||
| GO:0003684 |
damaged DNA binding |
IDA: Inferred from Direct Assay |
F |
complete | ||||
| GO:0006281 |
DNA repair |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0006284 |
base-excision repair |
IDA: Inferred from Direct Assay |
P |
complete | ||||
| GO:0006284 |
base-excision repair |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0003906 |
DNA-(apurinic or apyrimidinic site) lyase activity |
IDA: Inferred from Direct Assay |
F |
complete | ||||
| GO:0006289 |
nucleotide-excision repair |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0006974 |
response to DNA damage stimulus |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0008152 |
metabolic process |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0008270 |
zinc ion binding |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0008270 |
zinc ion binding |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0008270 |
zinc ion binding |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0008270 |
zinc ion binding |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0008270 |
zinc ion binding |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0016787 |
hydrolase activity |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0016798 |
hydrolase activity, acting on glycosyl bonds |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0016799 |
hydrolase activity, hydrolyzing N-glycosyl compounds |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0016799 |
hydrolase activity, hydrolyzing N-glycosyl compounds |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0016799 |
hydrolase activity, hydrolyzing N-glycosyl compounds |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0016799 |
hydrolase activity, hydrolyzing N-glycosyl compounds |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0016829 |
lyase activity |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0046872 |
metal ion binding |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| edit table |
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 |
Experiment(s):EBI-882379 | ||
|
Protein |
lpdA |
Experiment(s):EBI-882379 | ||
|
Protein |
groL |
Experiment(s):EBI-882379 | ||
|
Protein |
rplD |
Experiment(s):EBI-882379 | ||
|
Protein |
rplU |
Experiment(s):EBI-882379 | ||
|
Protein |
rpmB |
Experiment(s):EBI-882379 | ||
|
Protein |
rpsD |
Experiment(s):EBI-882379 | ||
|
Protein |
rpsN |
Experiment(s):EBI-882379 | ||
|
Protein |
slyD |
Experiment(s):EBI-882379 | ||
|
Protein |
nadE |
Experiment(s):EBI-1137778 | ||
|
Protein |
prs |
Experiment(s):EBI-1137778 | ||
|
Protein |
groL |
Experiment(s):EBI-1137778 | ||
|
Protein |
rplU |
LCMS(ID Probability):99.6 | ||
|
Protein |
rpsD |
LCMS(ID Probability):99.6 | ||
|
Protein |
rpmB |
LCMS(ID Probability):99.6 | ||
|
Protein |
groL |
LCMS(ID Probability):99.6 | ||
|
Protein |
slyD |
LCMS(ID Probability):99.6 | ||
|
Protein |
groS |
LCMS(ID Probability):99.6 | ||
|
Protein |
rplD |
LCMS(ID Probability):99.6 | ||
|
Protein |
hupB |
LCMS(ID Probability):99.6 | ||
|
Protein |
nfi |
LCMS(ID Probability):99.6 MALDI(Z-score):21.173437 | ||
|
DNA |
8-oxoG containing substrates |
Substrate |
X-linking | |
|
DNA |
Tetrahydrofuran analogs |
Substrate-processes to a gap |
Glycosylase assay | |
|
DNA |
cis-(5S,6R)-thymine glycol (TgA) |
Substrate |
Binding assays | |
|
DNA |
cis-(5R,6S)-thymine glycol (TgC) |
Substrate |
Binding assays | |
|
DNA |
5,6-dihydrouracil (DHU) |
Substrate |
Binding assay | |
| edit table |
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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 |
|---|---|---|---|---|
| edit table |
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Notes
Structure and Physical Properties
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Physical Properties
See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.
| Name | |
|---|---|
| Sequence |
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) |
| edit table |
Domains/Motifs/Modification Sites
|
See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.
|
<motif_map/> |
|
Structure
| </protect>
Structure figures<protect> | ||||||
Notes
- Kinetic properties of Nei are described in [5] and [7]
- Structures of active and inactive mutants described in [6]
- Catalytically important residues E2 and R252
Gene Product Resources
See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.
| Resource type | Source | Notes/Reference |
|---|---|---|
| edit table |
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Notes
Accessions in Other Databases
See Help:Gene_accessions for help with entering information into the Gene Accessions table.
| Database | Accession | Notes |
|---|---|---|
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
|
Escherichia coli str. K-12 substr. MG1655 | ||
| edit table |
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Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
References
See Help:References for how to manage references in EcoliWiki.
- ↑ 1.0 1.1 1.2 1.3 1.4 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
- ↑ 2.0 2.1 2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
- ↑ 5.0 5.1 5.2 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
- ↑ 6.0 6.1 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
- ↑ 7.0 7.1 7.2 7.3 7.4 7.5 7.6 7.7 7.8 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
- ↑ 8.0 8.1 8.2 8.3 8.4 8.5 8.6 8.7 8.8 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
- ↑ 9.0 9.1 9.2 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
- ↑ 10.0 10.1 10.2 10.3 10.4 10.5 10.6 10.7 10.8 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
- ↑ 11.0 11.1 11.2 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed
Categories
- GO:0000703 ! oxidized pyrimidine nucleobase lesion DNA N-glycosylase activity
- GO:0003676 ! nucleic acid binding
- GO:0003677 ! DNA binding
- GO:0003684 ! damaged DNA binding
- GO:0003824 ! catalytic activity
- GO:0003906 ! DNA-(apurinic or apyrimidinic site) endonuclease activity
- GO:0006281 ! DNA repair
- GO:0008270 ! zinc ion binding
- GO:0006284 ! base-excision repair
- GO:0006289 ! nucleotide-excision repair
- GO:0006974 ! cellular response to DNA damage stimulus
- GO:0008152 ! metabolic process
- GO:0016787 ! hydrolase activity
- GO:0016798 ! hydrolase activity, acting on glycosyl bonds
- GO:0016799 ! hydrolase activity, hydrolyzing N-glycosyl compounds
- GO:0016829 ! lyase activity
- GO:0046872 ! metal ion binding
- Proteins
