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Literature summary for 2.7.7.6 extracted from
- Early evolution of eukaryotic DNA-dependent RNA polymerases (2008), Trends Genet., 24, 211-215.
Crystallization (Commentary)
| Crystallization (Comment) | Organism |
|---|---|
| structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Cenarchaeum symbiosum |
| structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Nitrosopumilus maritimus |
Protein Variants
| Protein Variants | Comment | Organism |
|---|---|---|
| additional information | mutagenesis by amino-acid replacements altering the RNA polymerase II Switch 1 loop domain, such as rpb1-L1397S. rpb1-L1397S enhances RNA polymerase II occupancy downstream of the URA2 initiator | Saccharomyces cerevisiae |
Inhibitors
| Inhibitors | Comment | Organism | Structure |
|---|---|---|---|
| additional information | a relatively short DNA region, lost in up2DELTA mutant and located immediately upstream of the URA2 initiator, impairs URA2 transcription by preventing RNA polymerase II from progressing towards the URA2open reading frame | Saccharomyces cerevisiae |
Localization
| Localization | Comment | Organism | GeneOntology No. | Textmining |
|---|---|---|---|---|
| nucleus | distribution of TFIIB, TFIIH and RNA polymerase II at the URA2 locus, RNA polymerase II occupancy is increased on the URA2 open reading frame, overview | Saccharomyces cerevisiae | 5634 | - |
Natural Substrates/ Products (Substrates)
| Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| additional information | Saccharomyces cerevisiae | the Switch 1 loop of RNA polymerase II, located at the downstream end of the transcription bubble, may operate as a specific sensor of the nucleoside triphosphates available for transcription. Regulatory effects of RNA polymerase II on URA2 gene, encoding the rate-limiting enzyme of UTP biosynthesis after activation by UTP shortage, RNA polymerase II occupancy is increased on the URA2 open reading frame, overview | ? | - |
? |  |
Organism
| Organism | UniProt | Comment | Textmining |
|---|---|---|---|
| Caldivirga maquilingensis | - |
- |
- |
| Cenarchaeum symbiosum | - |
- |
- |
| Emiliania huxleyi | - |
- |
- |
| Escherichia coli | - |
- |
- |
| Methanocaldococcus jannaschii | - |
- |
- |
| Nanoarchaeum equitans | - |
- |
- |
| Nitrosopumilus maritimus | - |
- |
- |
| Pyrococcus furiosus | - |
- |
- |
| Saccharolobus solfataricus | - |
- |
- |
| Saccharomyces cerevisiae | - |
- |
- |
| Sulfolobus acidocaldarius | - |
- |
- |
| Thermofilum pendens | - |
- |
- |
Substrates and Products (Substrate)
| Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| additional information | the Switch 1 loop of RNA polymerase II, located at the downstream end of the transcription bubble, may operate as a specific sensor of the nucleoside triphosphates available for transcription. Regulatory effects of RNA polymerase II on URA2 gene, encoding the rate-limiting enzyme of UTP biosynthesis after activation by UTP shortage, RNA polymerase II occupancy is increased on the URA2 open reading frame, overview | Saccharomyces cerevisiae | ? | - |
? | |
Subunits
| Subunits | Comment | Organism |
|---|---|---|
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea | Escherichia coli |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea | Saccharomyces cerevisiae |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea | Pyrococcus furiosus |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea | Sulfolobus acidocaldarius |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea | Emiliania huxleyi |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea | Cenarchaeum symbiosum |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea | Caldivirga maquilingensis |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea | Thermofilum pendens |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea | Nitrosopumilus maritimus |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea. The enzyme lacks the G and M polypeptides | Methanocaldococcus jannaschii |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea. The enzyme lacks the G subunit | Saccharolobus solfataricus |
| More | secondary structure and organization of multi-subunit DNA-dependent RNA polymerases, overview. The Rpb8/G RNA polymerase subunit is restricted to eukaryotes and Crenarchaea. The enzyme lacks the G subunit | Nanoarchaeum equitans |
Synonyms
| Synonyms | Comment | Organism |
|---|---|---|
| DNA-dependent RNA polymerase | - |
Escherichia coli |
| DNA-dependent RNA polymerase | - |
Saccharomyces cerevisiae |
| DNA-dependent RNA polymerase | - |
Pyrococcus furiosus |
| DNA-dependent RNA polymerase | - |
Sulfolobus acidocaldarius |
| DNA-dependent RNA polymerase | - |
Saccharolobus solfataricus |
| DNA-dependent RNA polymerase | - |
Methanocaldococcus jannaschii |
| DNA-dependent RNA polymerase | - |
Emiliania huxleyi |
| DNA-dependent RNA polymerase | - |
Cenarchaeum symbiosum |
| DNA-dependent RNA polymerase | - |
Nanoarchaeum equitans |
| DNA-dependent RNA polymerase | - |
Caldivirga maquilingensis |
| DNA-dependent RNA polymerase | - |
Thermofilum pendens |
| DNA-dependent RNA polymerase | - |
Nitrosopumilus maritimus |
| Pol I | - |
Escherichia coli |
| Pol I | - |
Saccharomyces cerevisiae |
| Pol I | - |
Pyrococcus furiosus |
| Pol I | - |
Sulfolobus acidocaldarius |
| Pol I | - |
Saccharolobus solfataricus |
| Pol I | - |
Methanocaldococcus jannaschii |
| Pol I | - |
Emiliania huxleyi |
| Pol I | - |
Cenarchaeum symbiosum |
| Pol I | - |
Nanoarchaeum equitans |
| Pol I | - |
Caldivirga maquilingensis |
| Pol I | - |
Thermofilum pendens |
| Pol I | - |
Nitrosopumilus maritimus |
| Pol II | - |
Escherichia coli |
| Pol II | - |
Saccharomyces cerevisiae |
| Pol II | - |
Pyrococcus furiosus |
| Pol II | - |
Sulfolobus acidocaldarius |
| Pol II | - |
Saccharolobus solfataricus |
| Pol II | - |
Methanocaldococcus jannaschii |
| Pol II | - |
Emiliania huxleyi |
| Pol II | - |
Cenarchaeum symbiosum |
| Pol II | - |
Nanoarchaeum equitans |
| Pol II | - |
Caldivirga maquilingensis |
| Pol II | - |
Thermofilum pendens |
| Pol II | - |
Nitrosopumilus maritimus |
| pol III | - |
Escherichia coli |
| pol III | - |
Saccharomyces cerevisiae |
| pol III | - |
Pyrococcus furiosus |
| pol III | - |
Sulfolobus acidocaldarius |
| pol III | - |
Saccharolobus solfataricus |
| pol III | - |
Methanocaldococcus jannaschii |
| pol III | - |
Emiliania huxleyi |
| pol III | - |
Cenarchaeum symbiosum |
| pol III | - |
Nanoarchaeum equitans |
| pol III | - |
Caldivirga maquilingensis |
| pol III | - |
Thermofilum pendens |
| pol III | - |
Nitrosopumilus maritimus |
| RNA polymerase II | - |
Saccharomyces cerevisiae |
General Information
| General Information | Comment | Organism |
|---|---|---|
| additional information | structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Escherichia coli |
| additional information | structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Saccharomyces cerevisiae |
| additional information | structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Pyrococcus furiosus |
| additional information | structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Sulfolobus acidocaldarius |
| additional information | structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Saccharolobus solfataricus |
| additional information | structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Methanocaldococcus jannaschii |
| additional information | structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Emiliania huxleyi |
| additional information | structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Nanoarchaeum equitans |
| additional information | structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Caldivirga maquilingensis |
| additional information | structure-based analysis of the evolution of archaeal and eukaryotic DNA-dependent RNA polymerases, overview | Thermofilum pendens |
| physiological function | RNA polymerase II has a regulatory function on nucleoside triphosphate synthesis, mutations of RNA polymerase II activate key genes of the nucleoside triphosphate biosynthetic pathways, overview | Saccharomyces cerevisiae |
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