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Literature summary extracted from
- Characterization of a lysine-specific histone demethylase from Arabidopsis thaliana (2008), Biochemistry, 47, 4936-4947.
Activating Compound
| EC Number | Activating Compound | Comment | Organism | Structure |
|---|---|---|---|---|
| 1.14.99.66 | glycerol | inhibits at 10%, activates at above 30% | Arabidopsis thaliana |  |
Cloned(Commentary)
| EC Number | Cloned (Comment) | Organism |
|---|---|---|
| 1.14.99.66 | LSD1 DNA and amino acid sequence determination and analysis, comparisons with other LSD isozymes of Arabidopsis thaliana and the human enzyme, recombinant His-tagged LSD1 expression in Escherichia coli | Arabidopsis thaliana |
Inhibitors
| EC Number | Inhibitors | Comment | Organism | Structure |
|---|---|---|---|---|
| 1.14.99.66 | glycerol | inhibits at 10%, activates at above 30% | Arabidopsis thaliana | |
| 1.14.99.66 | KCl | 50 mM, 50% inhibition | Arabidopsis thaliana | |
| 1.14.99.66 | MgCl2 | 75% inhibition at 50 mM | Arabidopsis thaliana | |
| 1.14.99.66 | additional information | phosphorylation of the H3Ser10 residue totally abolishes the AtLSD1 demethylase activity toward the H3K4me1 peptide | Arabidopsis thaliana |
KM Value [mM]
| EC Number | KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|---|
| 1.14.99.66 | 0.0089 | - |
[histone H3]-N6-methyl-L-lysine4 | pH 8.0, 22°C, recombinant LSD1 | Arabidopsis thaliana | |
| 1.14.99.66 | 0.0107 | - |
[histone H3]-N6,N6-dimethyl-L-lysine4 | pH 8.0, 22°C, recombinant LSD1 | Arabidopsis thaliana | |
Localization
| EC Number | Localization | Comment | Organism | GeneOntology No. | Textmining |
|---|---|---|---|---|---|
| 1.14.99.66 | nucleus | nuclear localization signal at positions 517-534 of the LSD1 amino acid sequence | Arabidopsis thaliana | 5634 | - |
Natural Substrates/ Products (Substrates)
| EC Number | Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|---|
| 1.14.99.66 | [histone H3]-N6,N6-dimethyl-L-lysine4 + 2 2-oxoglutarate + 2 O2 | Arabidopsis thaliana | - |
[histone H3]-L-lysine4 + 2 succinate + 2 formaldehyde + 2 CO2 | - |
? | |
| 1.14.99.66 | [histone H3]-N6-methyl-L-lysine4 + 2-oxoglutarate + O2 | Arabidopsis thaliana | - |
[histone H3]-L-lysine4 + succinate + formaldehyde + CO2 | - |
? | |
Organism
| EC Number | Organism | UniProt | Comment | Textmining |
|---|---|---|---|---|
| 1.14.99.66 | Arabidopsis thaliana | Q8VXV7 | - |
- |
Posttranslational Modification
| EC Number | Posttranslational Modification | Comment | Organism |
|---|---|---|---|
| 1.14.99.66 | flavoprotein | - |
Arabidopsis thaliana |
Purification (Commentary)
| EC Number | Purification (Comment) | Organism |
|---|---|---|
| 1.14.99.66 | recombinant His-tagged LSD1 from Escherichia coli by nickel and heparin affinity chromatography | Arabidopsis thaliana |
Source Tissue
| EC Number | Source Tissue | Comment | Organism | Textmining |
|---|---|---|---|---|
| 1.14.99.66 | flower | high expression level | Arabidopsis thaliana | - |
| 1.14.99.66 | leaf | rosette and cauline leaves | Arabidopsis thaliana | - |
| 1.14.99.66 | additional information | semiquantitative RT-PCR tissue expression analysis | Arabidopsis thaliana | - |
| 1.14.99.66 | root | - |
Arabidopsis thaliana | - |
| 1.14.99.66 | silique | - |
Arabidopsis thaliana | - |
| 1.14.99.66 | stem | - |
Arabidopsis thaliana | - |
Substrates and Products (Substrate)
| EC Number | Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|---|
| 1.14.99.66 | additional information | LSD1 shows demethylase activity toward mono- and dimethylated Lys4 but not dimethylated Lys9 and Lys27 of histone 3, substrate and product identification by MALDI mass spectrometry. No LSD1 activity toward the H3K4me1-phosphoSer10 peptide | Arabidopsis thaliana | ? | - |
? | |
| 1.14.99.66 | [histone H3]-N6,N6-dimethyl-L-lysine4 + 2 2-oxoglutarate + 2 O2 | - |
Arabidopsis thaliana | [histone H3]-L-lysine4 + 2 succinate + 2 formaldehyde + 2 CO2 | - |
? | |
| 1.14.99.66 | [histone H3]-N6-methyl-L-lysine4 + 2-oxoglutarate + O2 | - |
Arabidopsis thaliana | [histone H3]-L-lysine4 + succinate + formaldehyde + CO2 | - |
? | |
Subunits
| EC Number | Subunits | Comment | Organism |
|---|---|---|---|
| 1.14.99.66 | More | LSD1 three-dimensional structure modelling on the basis of the human crystal structure as a template, overview | Arabidopsis thaliana |
Synonyms
| EC Number | Synonyms | Comment | Organism |
|---|---|---|---|
| 1.14.99.66 | lysine-specific histone demethylase | - |
Arabidopsis thaliana |
Temperature Optimum [°C]
| EC Number | Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
|---|---|---|---|---|
| 1.14.99.66 | 22 | - |
assay at room temperature | Arabidopsis thaliana |
Turnover Number [1/s]
| EC Number | Turnover Number Minimum [1/s] | Turnover Number Maximum [1/s] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|---|
| 1.14.99.66 | 0.008 | - |
[histone H3]-N6-methyl-L-lysine4 | pH 8.0, 22°C, recombinant LSD1 | Arabidopsis thaliana | |
| 1.14.99.66 | 0.011 | - |
[histone H3]-N6,N6-dimethyl-L-lysine4 | pH 8.0, 22°C, recombinant LSD1 | Arabidopsis thaliana | |
pH Optimum
| EC Number | pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|---|
| 1.14.99.66 | 8 | - |
- |
Arabidopsis thaliana |
pH Range
| EC Number | pH Minimum | pH Maximum | Comment | Organism |
|---|---|---|---|---|
| 1.14.99.66 | 6 | 9 | - |
Arabidopsis thaliana |
Cofactor
| EC Number | Cofactor | Comment | Organism | Structure |
|---|---|---|---|---|
| 1.14.99.66 | flavin | - |
Arabidopsis thaliana | |
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