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Literature summary for 6.2.1.B4 extracted from
- Homologs of aminoacyl-tRNA synthetases acylate carrier proteins and provide a link between ribosomal and nonribosomal peptide synthesis (2010), Proc. Natl. Acad. Sci. USA, 107, 14585-14590.
Crystallization (Commentary)
| Crystallization (Comment) | Organism |
|---|---|
| hanging drop vapor diffusion experiment, crystal structures of the enzyme in complex with AMP, ATP, and glycyladenylate are determined and refined at resolutions of 2.15, 2.50, and 2.20 A, respectively | Bradyrhizobium japonicum |
KM Value [mM]
| KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.0019 | - |
[acyl-carrier protein Bsr0959] | pH 7.5, 30°C | Bradyrhizobium japonicum | |
| 0.0039 | - |
[acyl-carrier protein Blr6284] | pH 7.5, 30°C | Bradyrhizobium japonicum |
Metals/Ions
| Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|
| Zn2+ | Zn2+ found in the active site is tetracoordinated by three conserved amino acids (Cys131, Glu176, and Cys279) and one water molecule | Bradyrhizobium japonicum |  |
Molecular Weight [Da]
| Molecular Weight [Da] | Molecular Weight Maximum [Da] | Comment | Organism |
|---|---|---|---|
| 35942 | - |
2 * 35942, calculated from sequence | Bradyrhizobium japonicum |
| 36803 | - |
x * 36803, calculated from sequence | Bradyrhizobium japonicum |
Natural Substrates/ Products (Substrates)
| Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| ATP + glycine + [acyl-carrier protein Blr6284] | Bradyrhizobium japonicum | - |
AMP + diphosphate + glycyl-[acyl-carrier protein Blr6284] + AMP + diphosphate | - |
? | |
| ATP + glycine + [acyl-carrier protein Bsr0959] | Bradyrhizobium japonicum | [acyl-carrier protein] Bsr0959 | AMP + diphosphate + glycyl-[acyl-carrier protein] + AMP + diphosphate | - |
? | |
Organism
| Organism | UniProt | Comment | Textmining |
|---|---|---|---|
| Bradyrhizobium japonicum | Q89GR3 | homologous to the catalytic domain of highly diverged, atypical seryl-tRNA synthetases found only in methanogenic archaea and are deprived of the tRNA-binding domain | - |
| Bradyrhizobium japonicum | Q89VT8 | homologous to the catalytic domain of highly diverged, atypical seryl-tRNA synthetases found only in methanogenic archaea and are deprived of the tRNA-binding domain | - |
Purification (Commentary)
| Purification (Comment) | Organism |
|---|---|
- |
Bradyrhizobium japonicum |
Substrates and Products (Substrate)
| Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| ATP + glycine + [acyl-carrier protein Blr6284] | - |
Bradyrhizobium japonicum | AMP + diphosphate + glycyl-[acyl-carrier protein Blr6284] + AMP + diphosphate | - |
? | |
| ATP + glycine + [acyl-carrier protein Blr6284] | the carrier protein Blr6284 is cloned and overexpressed in Escherichia coli (UniProt: Q89GR1). The 4'-phosphopantetheinyl prosthetic group is attached to purified apo-carrier proteins. The enzyme is homologous to the catalytic domain of highly diverged, atypical seryl-tRNA synthetases found only in methanogenic archaea and are deprived of the tRNA-binding domain. In comparison to seryl-tRNA synthetases, the homolog displays different and relaxed amino acid specificity. The homolog lacks canonical tRNA aminoacylating activity and instead transfers activated amino acid to phosphopantetheine prosthetic group of putative carrier proteins, whose genes are identified in the genomic surroundings of the homolog. Strong preference for Gly in the ATP-diphosphate exchange assay. L-Alanine is activated approximately 300fold less efficiently. No activity in ATP-diphosphate exchange assay: L-Ser, D-Ser, D-Ala, D-Pro, D-Glu | Bradyrhizobium japonicum | AMP + diphosphate + glycyl-[acyl-carrier protein Blr6284] + AMP + diphosphate | - |
? | |
| ATP + glycine + [acyl-carrier protein Bsr0959] | [acyl-carrier protein] Bsr0959 | Bradyrhizobium japonicum | AMP + diphosphate + glycyl-[acyl-carrier protein] + AMP + diphosphate | - |
? | |
| ATP + glycine + [acyl-carrier protein Bsr0959] | the carrier protein Bsr0959 is cloned and overexpressed in Escherichia coli (UniProt: Q89VT6). The 4'-phosphopantetheinyl prosthetic group is attached to purified apo-carrier proteins. The enzyme is homologous to the catalytic domain of highly diverged, atypical seryl-tRNA synthetases found only in methanogenic archaea and are deprived of the tRNA-binding domain. In comparison to seryl-tRNA synthetases, the homolog displays different and relaxed amino acid specificity. The homolog lacks canonical tRNA aminoacylating activity and instead transfers activated amino acid to phosphopantetheine prosthetic group of putative carrier proteins, whose genes are identified in the genomic surroundings of the homolog. Strong preference for Gly in the ATP-diphosphate exchange assay. L-Alanine is activated approximately 300fold less efficiently. No activity in ATP-diphosphate exchange assay: L-Ser, D-Ser, D-Ala, D-Pro, D-Glu | Bradyrhizobium japonicum | AMP + diphosphate + glycyl-[acyl-carrier protein] + AMP + diphosphate | - |
? | |
Subunits
| Subunits | Comment | Organism |
|---|---|---|
| ? | x * 36803, calculated from sequence | Bradyrhizobium japonicum |
| dimer | 2 * 35942, calculated from sequence | Bradyrhizobium japonicum |
Synonyms
| Synonyms | Comment | Organism |
|---|---|---|
| aa:CP ligase | - |
Bradyrhizobium japonicum |
| Bll0957 protein | - |
Bradyrhizobium japonicum |
| Bll6282 protein | - |
Bradyrhizobium japonicum |
Temperature Optimum [°C]
| Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
|---|---|---|---|
| 30 | - |
assay at | Bradyrhizobium japonicum |
Turnover Number [1/s]
| Turnover Number Minimum [1/s] | Turnover Number Maximum [1/s] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.093 | - |
[acyl-carrier protein Blr6284] | pH 7.5, 30°C | Bradyrhizobium japonicum | |
| 0.11 | - |
[acyl-carrier protein Bsr0959] | pH 7.5, 30°C | Bradyrhizobium japonicum |
pH Optimum
| pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|
| 7.5 | - |
assay at | Bradyrhizobium japonicum |
kcat/KM [mM/s]
| kcat/KM Value [1/mMs-1] | kcat/KM Value Maximum [1/mMs-1] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 23.91 | - |
[acyl-carrier protein Blr6284] | pH 7.5, 30°C | Bradyrhizobium japonicum | |
| 92.4 | - |
[acyl-carrier protein Bsr0959] | pH 7.5, 30°C | Bradyrhizobium japonicum |
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