yjgF:Gene Product(s)
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| Quickview | Gene | Gene Product(s) | Expression | Evolution | On One Page |
| 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 |
RidA |
|---|---|
| Synonyms |
ketoacid-binding protein[1], B4243[2][1], YjgF[2][1] , ECK4238, JW5755, b4243 |
| Product description |
Component of YjgF homotrimer[3] Function unknown; Salmonella ortholog required for full IlvE activity and for the dependence of the alternative pyrimidine biosynthesis (APB) pathway of thiamine biosynthesis upon the oxidative pentose phosphate pathway; serine sensitivity; trimeric[4] |
| EC number (for enzymes) | |
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Notes
Catalytic activity:2-iminobutanoate/2-iminopropanoate deaminase[5]
2-iminobutanoate + H2O = 2-oxobutanoate + NH3
2-iminopropanoate + H2O = pyruvate + NH3
"{RidA]accelerates the release of ammonia from reactive enamine/imine intermediates of the PLP-dependent threonine dehydratase (IlvA) in the low water environment of the cell. It catalyzes the deamination of enamine/imine intermediates to yield 2-ketobutyrate and ammonia. It is required for the detoxification of reactive intermediates of IlvA due to their highly nucleophilic abilities."
The RidA ortholog in Salmonella enteric Serotype Typhimurium is Involved in isoleucine biosynthesis in certain growth conditions.[6]
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:0016020 |
membrane |
IDA: Inferred from Direct Assay |
C |
Seeded from EcoCyc (v20.5) |
complete | |||
| GO:0005829 |
cytosol |
IDA: Inferred from Direct Assay |
C |
Seeded from EcoCyc (v20.5) |
complete | |||
| GO:0005829 |
cytosol |
IDA: Inferred from Direct Assay |
C |
Seeded from EcoCyc (v20.5) |
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 YjgF homotrimer |
could be indirect |
||
|
Protein |
rpsM |
LCMS(ID Probability):99.6 | ||
|
Protein |
rraB |
LCMS(ID Probability):99.6 | ||
|
Protein |
rplX |
LCMS(ID Probability):99.6 | ||
|
Protein |
dnaN |
LCMS(ID Probability):99.6 MALDI(Z-score):8.682030 | ||
|
Protein |
rplO |
LCMS(ID Probability):99.6 | ||
|
Protein |
groS |
MALDI(Z-score):21.758882 | ||
|
Protein |
yjjU |
MALDI(Z-score):31.932864 | ||
|
Protein |
bglB |
LCMS(ID Probability):99.3 | ||
|
Protein |
tdcF |
LCMS(ID Probability):99.6 | ||
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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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Physical Properties
See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.
| Name | |
|---|---|
| Sequence |
MSQTFYRCNK GEIMSKTIAT ENAPAAIGPY VQGVDLGNMI ITSGQIPVNP KTGEVPADVA AQARQSLDNV KAIVEAAGLK VGDIVKTTVF VKDLNDFATV NATYEAFFTE HNATFPARSC VEVARLPKDV KIEIEAIAVR R |
| Length |
141 |
| Mol. Wt |
15.169 kDa |
| pI |
6.0 (calculated) |
| Extinction coefficient |
4,470 - 4,720 (calc based on 3 Y, 0 W, and 2 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.
|
<motif_map/> |
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Structure
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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 |
|---|---|---|
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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 | ||
|
RegulonDB: |
Escherichia coli str. K-12 substr. MG1655 | |
|
EchoBASE: |
Escherichia coli str. K-12 substr. MG1655 | |
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Notes
Links
| Name | URL | Comments |
|---|---|---|
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References
See Help:References for how to manage references in EcoliWiki.
- ↑ 1.0 1.1 1.2 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
- ↑ 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.
- ↑ UniProtKB
- ↑ Christopherson, MR et al. (2008) YjgF is required for isoleucine biosynthesis when Salmonella enterica is grown on pyruvate medium. J. Bacteriol. 190 3057-62 PubMed
- ↑ 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
- ↑ Ishihama, Y et al. (2008) Protein abundance profiling of the Escherichia coli cytosol. BMC Genomics 9 102 PubMed
- ↑ Lopez-Campistrous, A et al. (2005) Localization, annotation, and comparison of the Escherichia coli K-12 proteome under two states of growth. Mol. Cell Proteomics 4 1205-9 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
- ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed
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