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Literature summary extracted from
- Deacylation transition states of a bacterial DD-peptidase (2006), Biochemistry, 45, 13074-13082.
Activating Compound
| EC Number | Activating Compound | Comment | Organism | Structure |
|---|---|---|---|---|
| 3.4.17.8 | additional information | no activation by D-lactate or D-phenyllactate | Streptomyces sp. |
Application
| EC Number | Application | Comment | Organism |
|---|---|---|---|
| 3.4.16.4 | medicine | DD-peptidases are targets for antibiotic designs | Streptomyces sp. R61 |
Inhibitors
| EC Number | Inhibitors | Comment | Organism | Structure |
|---|---|---|---|---|
| 3.4.16.4 | D-alpha-phenylpropionate | - |
Streptomyces sp. R61 |  |
| 3.4.16.4 | D-hexahydromandelate | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | D-mandelate | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | D-phenyllactate | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | glycolyl-L-Phe | - |
Streptomyces sp. R61 | |
| 3.4.17.8 | D-alpha-phenylpropionate | - |
Streptomyces sp. | |
| 3.4.17.8 | D-hexahydromandelate | - |
Streptomyces sp. | |
| 3.4.17.8 | D-lactate | - |
Streptomyces sp. | |
| 3.4.17.8 | D-mandelate | - |
Streptomyces sp. | |
| 3.4.17.8 | D-phenyllactate | - |
Streptomyces sp. | |
| 3.4.17.8 | glycolyl-L-Phe | - |
Streptomyces sp. | |
KM Value [mM]
| EC Number | KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|---|
| 3.4.16.4 | 0.0041 | - |
glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]sulfanyl]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 0.0079 | - |
N-[(6S)-6-carboxy-6-(glycylamino)hexanoyl]-D-alanyl-D-alanine | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 0.26 | - |
glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]amino]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 0.76 | - |
3-[[N-(phenylacetyl)glycyl]oxy]benzoic acid | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 1 | - |
(2R)-2-[[N-(phenylacetyl)glycyl]sulfanyl]propanoic acid | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 1.37 | - |
3-[[N-(phenylacetyl)-D-alanyl]oxy]benzoic acid | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 9.8 | - |
N,N'-diacetyl-L-lysyl-D-alanyl-D-alanine | - |
Streptomyces sp. R61 | |
Organism
| EC Number | Organism | UniProt | Comment | Textmining |
|---|---|---|---|---|
| 3.4.16.4 | Streptomyces sp. R61 | - |
- |
- |
| 3.4.17.8 | Streptomyces sp. | - |
- |
- |
Reaction
| EC Number | Reaction | Comment | Organism | Reaction ID |
|---|---|---|---|---|
| 3.4.17.8 | cleavage of the bond UDP-N-acetylmuramoyl-L-alanyl-D-gamma-glutamyl-6-carboxy-L-lysyl-D-alanyl-/-D-alanine | catalytic mechanism and transition state intermediates | Streptomyces sp. |
Substrates and Products (Substrate)
| EC Number | Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|---|
| 3.4.16.4 | (2R)-2-[[N-(phenylacetyl)glycyl]sulfanyl]propanoic acid + H2O | - |
Streptomyces sp. R61 | ? | - |
? | |
| 3.4.16.4 | 3-[[N-(phenylacetyl)-D-alanyl]oxy]benzoic acid + H2O | - |
Streptomyces sp. R61 | ? | - |
? | |
| 3.4.16.4 | 3-[[N-(phenylacetyl)glycyl]oxy]benzoic acid + H2O | - |
Streptomyces sp. R61 | ? | - |
? | |
| 3.4.16.4 | glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]amino]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine + H2O | - |
Streptomyces sp. R61 | ? | - |
? | |
| 3.4.16.4 | glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]sulfanyl]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine + H2O | - |
Streptomyces sp. R61 | ? | - |
? | |
| 3.4.16.4 | N,N'-diacetyl-L-lysyl-D-alanyl-D-alanine + H2O | - |
Streptomyces sp. R61 | ? | - |
? | |
| 3.4.16.4 | N-[(6S)-6-carboxy-6-(glycylamino)hexanoyl]-D-alanyl-D-alanine + H2O | - |
Streptomyces sp. R61 | ? | - |
? | |
| 3.4.17.8 | 2-[(ammonioacetyl)amino]-3-[[3-([2-[(1-carboxylatoethyl)amino]-1-methyl-2-oxoethyl]amino)-3-oxopropyl]sulfanyl]propanoate + H2O | - |
Streptomyces sp. | ? | - |
? | |
| 3.4.17.8 | 2-[(ammonioacetyl)amino]-3-[[3-([2-[(1-carboxylatoethyl)sulfanyl]-1-methyl-2-oxoethyl]amino)-3-oxopropyl]sulfanyl]propanoate + H2O | - |
Streptomyces sp. | ? | - |
? | |
| 3.4.17.8 | 2-[(ammonioacetyl)amino]-7-([2-[(1-carboxylatoethyl)amino]-1-methyl-2-oxoethyl]amino)-7-oxoheptanoate + H2O | - |
Streptomyces sp. | ? | - |
? | |
| 3.4.17.8 | 2-[[N-(phenylacetyl)alanyl]sulfanyl]propanoic acid + H2O | - |
Streptomyces sp. | ? | - |
? | |
| 3.4.17.8 | 3-[[N-(phenylacetyl)alanyl]oxy]benzoic acid + H2O | - |
Streptomyces sp. | ? | - |
? | |
| 3.4.17.8 | 3-[[N-(phenylacetyl)glycyl]oxy]benzoic acid + H2O | - |
Streptomyces sp. | ? | - |
? | |
| 3.4.17.8 | additional information | substrate specificity, overview | Streptomyces sp. | ? | - |
? | |
| 3.4.17.8 | N,N'-diacetyl-L-lysyl-D-alanyl-D-alanine + H2O | - |
Streptomyces sp. | N,N'-diacetyl-L-lysyl-D-alanine + D-alanine | - |
? | |
Synonyms
| EC Number | Synonyms | Comment | Organism |
|---|---|---|---|
| 3.4.16.4 | DD-peptidase | - |
Streptomyces sp. R61 |
| 3.4.16.4 | PBP | - |
Streptomyces sp. R61 |
| 3.4.16.4 | penicillin-binding protein | - |
Streptomyces sp. R61 |
| 3.4.16.4 | transpeptidase | - |
Streptomyces sp. R61 |
| 3.4.17.8 | DD-peptidase | - |
Streptomyces sp. |
Temperature Optimum [°C]
| EC Number | Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
|---|---|---|---|---|
| 3.4.16.4 | 25 | - |
kinetic measurements | Streptomyces sp. R61 |
| 3.4.17.8 | 25 | - |
assay at | Streptomyces sp. |
Turnover Number [1/s]
| EC Number | Turnover Number Minimum [1/s] | Turnover Number Maximum [1/s] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|---|
| 3.4.16.4 | 1.51 | - |
3-[[N-(phenylacetyl)glycyl]oxy]benzoic acid | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 5.7 | - |
(2R)-2-[[N-(phenylacetyl)glycyl]sulfanyl]propanoic acid | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 31 | - |
3-[[N-(phenylacetyl)-D-alanyl]oxy]benzoic acid | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 34.5 | - |
N,N'-diacetyl-L-lysyl-D-alanyl-D-alanine | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 48 | - |
glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]amino]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 69 | - |
N-[(6S)-6-carboxy-6-(glycylamino)hexanoyl]-D-alanyl-D-alanine | - |
Streptomyces sp. R61 | |
| 3.4.16.4 | 81 | - |
glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]sulfanyl]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine | - |
Streptomyces sp. R61 | |
pH Optimum
| EC Number | pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|---|
| 3.4.16.4 | 7.5 | - |
kinetic measurements | Streptomyces sp. R61 |
| 3.4.17.8 | 7.5 | - |
assay at | Streptomyces sp. |
Ki Value [mM]
| EC Number | Ki Value [mM] | Ki Value maximum [mM] | Inhibitor | Comment | Organism | Structure |
|---|---|---|---|---|---|---|
| 3.4.16.4 | 7 | - |
D-hexahydromandelate | substrate glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]sulfanyl]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine | Streptomyces sp. R61 | |
| 3.4.16.4 | 11.6 | - |
D-mandelate | substrate (2R)-2-[[N-(phenylacetyl)glycyl]sulfanyl]propanoic acid | Streptomyces sp. R61 | |
| 3.4.16.4 | 11.6 | - |
D-mandelate | substrate 3-[[N-(phenylacetyl)-D-alanyl]oxy]benzoic acid | Streptomyces sp. R61 | |
| 3.4.16.4 | 11.6 | - |
D-mandelate | substrate 3-[[N-(phenylacetyl)glycyl]oxy]benzoic acid | Streptomyces sp. R61 | |
| 3.4.16.4 | 11.6 | - |
D-mandelate | substrate glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]sulfanyl]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine | Streptomyces sp. R61 | |
| 3.4.16.4 | 15.5 | - |
D-alpha-phenylpropionate | glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]sulfanyl]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine | Streptomyces sp. R61 | |
| 3.4.16.4 | 17.8 | - |
D-phenyllactate | substrate glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]sulfanyl]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine | Streptomyces sp. R61 | |
| 3.4.16.4 | 19.3 | - |
glycolyl-L-Phe | substrate glycyl-S-(3-[[(1R)-2-[[(1R)-1-carboxyethyl]sulfanyl]-1-methyl-2-oxoethyl]amino]-3-oxopropyl)-L-cysteine | Streptomyces sp. R61 | |
| 3.4.17.8 | additional information | - |
additional information | inhibition kinetics | Streptomyces sp. | |
| 3.4.17.8 | 7 | - |
D-hexahydromandelate | pH 7.5, 25°C | Streptomyces sp. | |
| 3.4.17.8 | 11.6 | - |
D-mandelate | pH 7.5, 25°C | Streptomyces sp. | |
| 3.4.17.8 | 15.5 | - |
D-alpha-phenylpropionate | pH 7.5, 25°C | Streptomyces sp. | |
| 3.4.17.8 | 17.8 | - |
D-phenyllactate | pH 7.5, 25°C | Streptomyces sp. | |
| 3.4.17.8 | 19.3 | - |
glycolyl-L-Phe | pH 7.5, 25°C | Streptomyces sp. | |
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