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Literature summary extracted from

  • Svetlov, V.; Nudler, E.
    Macromolecular micromovements: how RNA polymerase translocates (2009), Curr. Opin. Struct. Biol., 19, 701-707.
    View publication on PubMedView publication on EuropePMC

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
2.7.7.6 crystal structure of the core enzyme at 3.3 A resolution Thermus aquaticus
2.7.7.6 crystal structure of the core enzyme at about 3.3 A resolution Saccharomyces cerevisiae
2.7.7.6 crystal structure of the core enzyme at about 3.3 A resolution Saccharolobus solfataricus

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2.7.7.6 additional information Thermus aquaticus multi-subunit DNA-dependent RNA polymerases synthesize RNA molecules thousands of nucleotides long. The reiterative reaction of nucleotide condensation occurs at rates of tens of nucleotides per second, invariably linked to the translocation of the enzyme along the DNA template, or threading of the DNA and the nascent RNA molecule through the enzyme. Reiteration of the nucleotide addition/translocation cycle without dissociation from the DNA and RNA requires both isomorphic and metamorphic conformational flexibility of a magnitude substantial enough to accommodate the requisite molecular motions ?
-
 ?
2.7.7.6 additional information Thermus thermophilus multi-subunit DNA-dependent RNA polymerases synthesize RNA molecules thousands of nucleotides long. The reiterative reaction of nucleotide condensation occurs at rates of tens of nucleotides per second, invariably linked to the translocation of the enzyme along the DNA template, or threading of the DNA and the nascent RNA molecule through the enzyme. Reiteration of the nucleotide addition/translocation cycle without dissociation from the DNA and RNA requires both isomorphic and metamorphic conformational flexibility of a magnitude substantial enough to accommodate the requisite molecular motions ?
-
 ?
2.7.7.6 additional information Escherichia coli multi-subunit DNA-dependent RNA polymerases synthesize RNA molecules thousands of nucleotides long. The reiterative reaction of nucleotide condensation occurs at rates of tens of nucleotides per second, invariably linked to the translocation of the enzyme along the DNA template, or threading of the DNA and the nascent RNA molecule through the enzyme. Reiteration of the nucleotide addition/translocation cycle without dissociation from the DNA and RNA requires both isomorphic and metamorphic conformational flexibility of a magnitude substantial enough to accommodate the requisite molecular motions ?
-
 ?
2.7.7.6 additional information Saccharomyces cerevisiae multi-subunit DNA-dependent RNA polymerases synthesize RNA molecules thousands of nucleotides long. The reiterative reaction of nucleotide condensation occurs at rates of tens of nucleotides per second, invariably linked to the translocation of the enzyme along the DNA template, or threading of the DNA and the nascent RNA molecule through the enzyme. Reiteration of the nucleotide addition/translocation cycle without dissociation from the DNA and RNA requires both isomorphic and metamorphic conformational flexibility of a magnitude substantial enough to accommodate the requisite molecular motions ?
-
 ?
2.7.7.6 additional information Saccharolobus solfataricus multi-subunit DNA-dependent RNA polymerases synthesize RNA molecules thousands of nucleotides long. The reiterative reaction of nucleotide condensation occurs at rates of tens of nucleotides per second, invariably linked to the translocation of the enzyme along the DNA template, or threading of the DNA and the nascent RNA molecule through the enzyme. Reiteration of the nucleotide addition/translocation cycle without dissociation from the DNA and RNA requires both isomorphic and metamorphic conformational flexibility of a magnitude substantial enough to accommodate the requisite molecular motions ?
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
2.7.7.6 Escherichia coli
-
-
-
2.7.7.6 Saccharolobus solfataricus
-
-
-
2.7.7.6 Saccharomyces cerevisiae
-
-
-
2.7.7.6 Thermus aquaticus
-
-
-
2.7.7.6 Thermus thermophilus
-
-
-

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2.7.7.6 additional information multi-subunit DNA-dependent RNA polymerases synthesize RNA molecules thousands of nucleotides long. The reiterative reaction of nucleotide condensation occurs at rates of tens of nucleotides per second, invariably linked to the translocation of the enzyme along the DNA template, or threading of the DNA and the nascent RNA molecule through the enzyme. Reiteration of the nucleotide addition/translocation cycle without dissociation from the DNA and RNA requires both isomorphic and metamorphic conformational flexibility of a magnitude substantial enough to accommodate the requisite molecular motions Thermus aquaticus ?
-
 ?
2.7.7.6 additional information multi-subunit DNA-dependent RNA polymerases synthesize RNA molecules thousands of nucleotides long. The reiterative reaction of nucleotide condensation occurs at rates of tens of nucleotides per second, invariably linked to the translocation of the enzyme along the DNA template, or threading of the DNA and the nascent RNA molecule through the enzyme. Reiteration of the nucleotide addition/translocation cycle without dissociation from the DNA and RNA requires both isomorphic and metamorphic conformational flexibility of a magnitude substantial enough to accommodate the requisite molecular motions Thermus thermophilus ?
-
 ?
2.7.7.6 additional information multi-subunit DNA-dependent RNA polymerases synthesize RNA molecules thousands of nucleotides long. The reiterative reaction of nucleotide condensation occurs at rates of tens of nucleotides per second, invariably linked to the translocation of the enzyme along the DNA template, or threading of the DNA and the nascent RNA molecule through the enzyme. Reiteration of the nucleotide addition/translocation cycle without dissociation from the DNA and RNA requires both isomorphic and metamorphic conformational flexibility of a magnitude substantial enough to accommodate the requisite molecular motions Escherichia coli ?
-
 ?
2.7.7.6 additional information multi-subunit DNA-dependent RNA polymerases synthesize RNA molecules thousands of nucleotides long. The reiterative reaction of nucleotide condensation occurs at rates of tens of nucleotides per second, invariably linked to the translocation of the enzyme along the DNA template, or threading of the DNA and the nascent RNA molecule through the enzyme. Reiteration of the nucleotide addition/translocation cycle without dissociation from the DNA and RNA requires both isomorphic and metamorphic conformational flexibility of a magnitude substantial enough to accommodate the requisite molecular motions Saccharomyces cerevisiae ?
-
 ?
2.7.7.6 additional information multi-subunit DNA-dependent RNA polymerases synthesize RNA molecules thousands of nucleotides long. The reiterative reaction of nucleotide condensation occurs at rates of tens of nucleotides per second, invariably linked to the translocation of the enzyme along the DNA template, or threading of the DNA and the nascent RNA molecule through the enzyme. Reiteration of the nucleotide addition/translocation cycle without dissociation from the DNA and RNA requires both isomorphic and metamorphic conformational flexibility of a magnitude substantial enough to accommodate the requisite molecular motions Saccharolobus solfataricus ?
-
 ?
2.7.7.6 additional information RNAP adds nucleotides to the 3'-end of the growing RNA and translocates reiteratively, in single nucleotide steps. Translocation mechanism models, concerning conformational changes, allosteric effects and isomerization, and model evaluation, overview Thermus aquaticus ?
-
 ?
2.7.7.6 additional information RNAP adds nucleotides to the 3'-end of the growing RNA and translocates reiteratively, in single nucleotide steps. Translocation mechanism models, concerning conformational changes, allosteric effects and isomerization, and model evaluation, overview Thermus thermophilus ?
-
 ?
2.7.7.6 additional information RNAP adds nucleotides to the 3'-end of the growing RNA and translocates reiteratively, in single nucleotide steps. Translocation mechanism models, concerning conformational changes, allosteric effects and isomerization, and model evaluation, overview Escherichia coli ?
-
 ?
2.7.7.6 additional information RNAP adds nucleotides to the 3'-end of the growing RNA and translocates reiteratively, in single nucleotide steps. Translocation mechanism models, concerning conformational changes, allosteric effects and isomerization, and model evaluation, overview Saccharomyces cerevisiae ?
-
 ?
2.7.7.6 additional information RNAP adds nucleotides to the 3'-end of the growing RNA and translocates reiteratively, in single nucleotide steps. Translocation mechanism models, concerning conformational changes, allosteric effects and isomerization, and model evaluation, overview Saccharolobus solfataricus ?
-
 ?

Subunits

EC Number Subunits Comment Organism
2.7.7.6 More conformational plasticity of the active center and importance of the bridge helix structure for enzyme activity, overview Thermus aquaticus
2.7.7.6 More conformational plasticity of the active center and importance of the bridge helix structure for enzyme activity, overview Thermus thermophilus
2.7.7.6 More conformational plasticity of the active center and importance of the bridge helix structure for enzyme activity, overview Escherichia coli
2.7.7.6 More conformational plasticity of the active center and importance of the bridge helix structure for enzyme activity, overview Saccharomyces cerevisiae
2.7.7.6 More conformational plasticity of the active center and importance of the bridge helix structure for enzyme activity, overview Saccharolobus solfataricus

Synonyms

EC Number Synonyms Comment Organism
2.7.7.6 DNA-dependent RNA polymerase
-
 Thermus aquaticus
2.7.7.6 DNA-dependent RNA polymerase
-
 Thermus thermophilus
2.7.7.6 DNA-dependent RNA polymerase
-
 Escherichia coli
2.7.7.6 DNA-dependent RNA polymerase
-
 Saccharomyces cerevisiae
2.7.7.6 DNA-dependent RNA polymerase
-
 Saccharolobus solfataricus
2.7.7.6 RNA polymerase
-
 Thermus aquaticus
2.7.7.6 RNA polymerase
-
 Thermus thermophilus
2.7.7.6 RNA polymerase
-
 Escherichia coli
2.7.7.6 RNA polymerase
-
 Saccharomyces cerevisiae
2.7.7.6 RNA polymerase
-
 Saccharolobus solfataricus
2.7.7.6 RNAP
-
 Thermus aquaticus
2.7.7.6 RNAP
-
 Thermus thermophilus
2.7.7.6 RNAP
-
 Escherichia coli
2.7.7.6 RNAP
-
 Saccharomyces cerevisiae
2.7.7.6 RNAP
-
 Saccharolobus solfataricus

General Information

EC Number General Information Comment Organism
2.7.7.6 malfunction reverse translocation, i.e. backtracking, by a distance of one or more nucleotides disrupts the configuration of the catalytic center, leading to a temporary, spontaneously resolved, halt of the RNAP, called pausing, or to a transition into an irreversible arrested state. The latter can be restored to functionality by the endonucleolytic cleavage of the RNA or by pushing the backtracked complex from behind. Non-backtracked paused complexes are also described for bacterial RNAPs, where addition of the incoming NTP is hindered owing to isomerization of the active site into an inactive conformation Thermus aquaticus
2.7.7.6 malfunction reverse translocation, i.e. backtracking, by a distance of one or more nucleotides disrupts the configuration of the catalytic center, leading to a temporary, spontaneously resolved, halt of the RNAP, called pausing, or to a transition into an irreversible arrested state. The latter can be restored to functionality by the endonucleolytic cleavage of the RNA or by pushing the backtracked complex from behind. Non-backtracked paused complexes are also described for bacterial RNAPs, where addition of the incoming NTP is hindered owing to isomerization of the active site into an inactive conformation Thermus thermophilus
2.7.7.6 malfunction reverse translocation, i.e. backtracking, by a distance of one or more nucleotides disrupts the configuration of the catalytic center, leading to a temporary, spontaneously resolved, halt of the RNAP, called pausing, or to a transition into an irreversible arrested state. The latter can be restored to functionality by the endonucleolytic cleavage of the RNA or by pushing the backtracked complex from behind. Non-backtracked paused complexes are also described for bacterial RNAPs, where addition of the incoming NTP is hindered owing to isomerization of the active site into an inactive conformation Escherichia coli
2.7.7.6 malfunction reverse translocation, i.e. backtracking, by a distance of one or more nucleotides disrupts the configuration of the catalytic center, leading to a temporary, spontaneously resolved, halt of the RNAP, called pausing, or to a transition into an irreversible arrested state. The latter can be restored to functionality by the endonucleolytic cleavage of the RNA or by pushing the backtracked complex from behind. Non-backtracked paused complexes are also described for bacterial RNAPs, where addition of the incoming NTP is hindered owing to isomerization of the active site into an inactive conformation Saccharomyces cerevisiae
2.7.7.6 malfunction reverse translocation, i.e. backtracking, by a distance of one or more nucleotides disrupts the configuration of the catalytic center, leading to a temporary, spontaneously resolved, halt of the RNAP, called pausing, or to a transition into an irreversible arrested state. The latter can be restored to functionality by the endonucleolytic cleavage of the RNA or by pushing the backtracked complex from behind. Non-backtracked paused complexes are also described for bacterial RNAPs, where addition of the incoming NTP is hindered owing to isomerization of the active site into an inactive conformation Saccharolobus solfataricus