sodB: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 |
SodB |
|---|---|
| Synonyms |
superoxide dismutase, Fe[1], B1656[2][1], SodB[2][1] , ECK1652, JW1648, b1656 |
| Product description |
Component of superoxide dismutase (Fe)[2][3] Superoxide dismutase, Fe; response to oxidative stress; chromate resistance; negatively regulated by ryhB RNA as part of indirect positive regulation by Fur; acid-inducible[4] |
| EC number (for enzymes) | |
| edit table |
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Notes
Paraquat (methyl viologen) & plumbagin generate superoxide.
6-phosphogluconate dehydratase, dihydroxyacid dehydratase, quinolinate synthase, and aconitase are considered to be superoxide sensitive enzymes[5] [6] [7] [8].
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:0004784 |
superoxide dismutase activity |
IDA: Inferred from Direct Assay |
F |
complete | ||||
| GO:0005737 |
cytoplasm |
IDA: Inferred from Direct Assay |
C |
Although SodB was previously localized to the periplasmic space, this was shown to be incorrect by the methods used in this paper (spheroplast formation, osmotic shock & addition of diazo-NDS, an inhibitory reagent that cannot cross the inner membrane). |
complete | |||
| GO:0004784 |
superoxide dismutase activity |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0005506 |
iron ion binding |
IPI: Inferred from Physical Interaction |
F |
Missing: with/from | ||||
| GO:0004784 |
superoxide dismutase activity |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0046872 |
metal ion binding |
IPI: Inferred from Physical Interaction |
F |
Missing: with/from | ||||
| GO:0004784 |
superoxide dismutase activity |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0004784 |
superoxide dismutase activity |
IDA: Inferred from Direct Assay |
F |
complete | ||||
| GO:0004784 |
superoxide dismutase activity |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0000303 |
response to superoxide |
IDA: Inferred from Direct Assay |
P |
complete | ||||
| GO:0004784 |
superoxide dismutase activity |
GOA:spec |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0016491 |
oxidoreductase activity |
IDA: Inferred from Direct Assay |
F |
complete | ||||
| GO:0005506 |
iron ion binding |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0006801 |
superoxide metabolic process |
IDA: Inferred from Direct Assay |
P |
complete | ||||
| GO:0005829 |
cytosol |
IDA: Inferred from Direct Assay |
C |
Seeded from EcoCyc (v14.0) |
complete | |||
| GO:0055114 |
oxidation reduction |
IDA: Inferred from Direct Assay |
P |
complete | ||||
| GO:0006801 |
superoxide metabolic process |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0019430 |
removal of superoxide radicals |
IDA: Inferred from Direct Assay |
P |
complete | ||||
| GO:0006801 |
superoxide metabolic process |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0000303 |
response to superoxide |
IMP: Inferred from Mutant Phenotype |
P |
complete | ||||
| GO:0006801 |
superoxide metabolic process |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
|
Contributes to |
GO:0004784 |
superoxide dismutase activity |
IMP: Inferred from Mutant Phenotype |
F |
complete | |||
| GO:0006801 |
superoxide metabolic process |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0006801 |
superoxide metabolic process |
IMP: Inferred from Mutant Phenotype |
P |
complete | ||||
| GO:0016020 |
membrane |
IDA: Inferred from Direct Assay |
C |
Seeded from EcoCyc (v14.0) |
complete | |||
| GO:0055114 |
oxidation reduction |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0055114 |
oxidation reduction |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0055114 |
oxidation reduction |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0055114 |
oxidation reduction |
GOA:interpro |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc (v14.0) |
complete | ||
| GO:0055114 |
oxidation reduction |
GOA:spkw |
IEA: Inferred from Electronic Annotation |
P |
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 |
Subunits of superoxide dismutase (Fe) |
could be indirect |
||
|
Protein |
evgA |
Experiment(s):EBI-1140393 | ||
|
Protein |
ygaE |
Experiment(s):EBI-1140393 | ||
|
Protein |
rplB |
Experiment(s):EBI-1140393 | ||
|
Protein |
slyD |
Experiment(s):EBI-1140393 | ||
|
Protein |
pal |
Experiment(s):EBI-1140393 | ||
|
Protein |
Fur |
sodB is positively regulated by Fur |
11917098 |
|
| 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 |
MSFELPALPY AKDALAPHIS AETIEYHYGK HHQTYVTNLN NLIKGTAFEG KSLEEIIRSS EGGVFNNAAQ VWNHTFYWNC LAPNAGGEPT GKVAEAIAAS FGSFADFKAQ FTDAAIKNFG SGWTWLVKNS DGKLAIVSTS NAGTPLTTDA TPLLTVDVWE HAYYIDYRNA RPGYLEHFWA LVNWEFVAKN LAA |
| Length |
193 |
| Mol. Wt |
21.265 kDa |
| pI |
5.9 (calculated) |
| Extinction coefficient |
51,910 - 52,035 (calc based on 9 Y, 7 W, and 1 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
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 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
- ↑ 2.0 2.1 2.2 2.3 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ 3.0 3.1 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.
- ↑ Gardner, PR & Fridovich, I (1991) Superoxide sensitivity of the Escherichia coli 6-phosphogluconate dehydratase. J. Biol. Chem. 266 1478-83 PubMed
- ↑ Gardner, PR & Fridovich, I (1991) Superoxide sensitivity of the Escherichia coli aconitase. J. Biol. Chem. 266 19328-33 PubMed
- ↑ Gardner, PR & Fridovich, I (1991) Quinolinate synthetase: the oxygen-sensitive site of de novo NAD(P)+ biosynthesis. Arch. Biochem. Biophys. 284 106-11 PubMed
- ↑ Kuo, CF et al. (1987) alpha, beta-Dihydroxyisovalerate dehydratase. A superoxide-sensitive enzyme. J. Biol. Chem. 262 4724-7 PubMed
- ↑ Yost, FJ Jr & Fridovich, I (1973) An iron-containing superoxide dismutase from Escherichia coli. J. Biol. Chem. 248 4905-8 PubMed
- ↑ Britton, L & Fridovich, I (1977) Intracellular localization of the superoxide dismutases of Escherichia coli: a reevaluation. J. Bacteriol. 131 815-20 PubMed
- ↑ 11.0 11.1 Vance, CK & Miller, AF (2001) Novel insights into the basis for Escherichia coli superoxide dismutase's metal ion specificity from Mn-substituted FeSOD and its very high E(m). Biochemistry 40 13079-87 PubMed
- ↑ 12.0 12.1 12.2 12.3 12.4 12.5 Hopkin, KA et al. (1992) Functional differences between manganese and iron superoxide dismutases in Escherichia coli K-12. J. Biol. Chem. 267 24253-8 PubMed
- ↑ 13.0 13.1 Lasserre, JP et al. (2006) A complexomic study of Escherichia coli using two-dimensional blue native/SDS polyacrylamide gel electrophoresis. Electrophoresis 27 3306-21 PubMed
- ↑ 14.0 14.1 14.2 Farr, SB et al. (1986) Oxygen-dependent mutagenesis in Escherichia coli lacking superoxide dismutase. Proc. Natl. Acad. Sci. U.S.A. 83 8268-72 PubMed
- ↑ 15.0 15.1 15.2 15.3 15.4 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
- ↑ 16.0 16.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed
Categories
- GO:0004784 ! superoxide dismutase activity
- GO:0005737 ! cytoplasm
- GO:0005506 ! iron ion binding
- GO:0046872 ! metal ion binding
- GO:0000303 ! response to superoxide
- GO:0016491 ! oxidoreductase activity
- GO:0006801 ! superoxide metabolic process
- GO:0005829 ! cytosol
- GO:0055114 ! oxidation-reduction process
- GO:0019430 ! removal of superoxide radicals
- GO:0016020 ! membrane
- Proteins
- RefGenome Annotated Gene
