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Data description
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Data name
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Solubility
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DOI
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10.18908/lsdba.nbdc00440-001
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Description of data contents
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The solubilities of individual proteins were evaluated by using a cell-free translation system (PURE system) which is chaperone-free.
The data of chaperone effects on the prevention of aggregate formation are available for 788 aggregation-prone proteins.
The concentrations of chaperones were as follows:
- TF (Trigger factor): 5.0 (monomer) μM
- GroE (GroEL and GroES): 0.5 (tetradecamer) and 1.0 (heptamer) μM
- KJE (DnaK, DnaJ and GrpE): 5.0 (monomer), 2.0 (monomer), and 2.0 (monomer) μM
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Data file
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File name :
esol.zip
File URL :
File size :
192 KB
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Simple search URL
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http://togodb.biosciencedbc.jp/togodb/view/esol#en
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Data acquisition method
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After the protein synthesis with [35S]methionine, an aliquot was withdrawn as the total fraction, and the remainder was centrifuged at 21,600 × g for 30 min. Both the total and supernatant fractions were separated by SDS-PAGE, and the band intensities were quantified by autoradiography.
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Data analysis method
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-
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Number of data entries
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4,132 entries. (Out of all the entries, 3,173 entries have the data of solubilities and 788 entries have the data of chaperone effects on the prevention of aggregate formation.)
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Data detail
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Data item
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Description
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| JW_ID |
Gene ID assigned by GenoBase to the E. coli strain K-12 substrain W3110. |
| ECK number |
Accession number which can refer to genes in both substrains MG1655 and W3110 of the E. coli strain K-12. |
| B number |
Gene accession number assigned by the Blattner laboratory to the E. coli strain K-12 substrain MG1655. |
| Gene name K-12 |
Gene name of the E. coli strain K-12. |
| Locus name K-12 |
Locus name of the E. coli strain K-12. |
| Synonyms of locus names K-12 |
Synonyms of the locus name of the E. coli strain K-12. |
| Solubility (%) |
Solubility determined in Niwa et. al., PNAS 2009. (unit: %) |
| Yield (uM) |
Yield of the protein measured in Niwa et. al., PNAS 2009. (unit: μM) |
| Yield (ug/ml) |
Yield of the protein measured in Niwa et. al., PNAS 2009. (unit: μg/ml) |
| Minus Sol (%) |
Solubility in the absence of any chaperons. (unit: %) It is redetermined to evaluate chaperon effects. |
| TF Sol (%) |
Solubility in the presence of Trigger Factor. (unit: %) |
| GroE Sol (%) |
Solubility in the presence of GroEL/ES. (unit: %) |
| KJE Sol (%) |
Solubility in the presence of DnaK/DnaJ/GrpE. (unit: %) |
| Minus Yield (uM) |
Yield in the absence of any chaperons. (unit: μM) |
| TF Yield (uM) |
Yield in the presence of Trigger Factor. (unit: μM) |
| GroE Yield (uM) |
Yield in the presence of GroEL/ES. (unit: μM) |
| KJE Yield (uM) |
Yield in the presence of DnaK/DnaJ/GrpE. (unit: μM) |
| Minus Yield (ug/ml) |
Yield in the absence of any chaperons. (unit: μg/ml) |
| TF Yield (ug/ml) |
Yield in the presence of Trigger Factor. (unit: μg/ml) |
| GroE Yield (ug/ml) |
Yield in the presence of GroEL/ES. (unit: μg/ml) |
| KJE Yield (ug/ml) |
Yield in the presence of DnaK/DnaJ/GrpE. (unit: μg/ml) |
| Calculated MW (kDa) |
Molecular weight calculated from amino acid sequences. (unit: kDa) |
| Calculated pI |
Isoelectric point calculated from amino acid sequences. |
| Type of gene product |
Type of gene product obtained from Genobase. (About the description of "Type of gene product", see this page.) |
| Gene product description |
Description obtained from Genobase. |
| Cell location |
Localization in the cell. |
| Structure (PDB) ID |
PDB ID obtained from Genobase. |
| SCOP assignment |
SCOP assignment obtained from Genobase. |
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