This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
2r93
From Proteopedia
| |||||||
| , resolution 4.0Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | and | ||||||
| Activity: | DNA-directed RNA polymerase, with EC number 2.7.7.6 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Elongation complex of RNA polymerase II with a hepatitis delta virus-derived RNA stem loop
Overview
RNA polymerase (Pol) II catalyses DNA-dependent RNA synthesis during gene transcription. There is, however, evidence that Pol II also possesses RNA-dependent RNA polymerase (RdRP) activity. Pol II can use a homopolymeric RNA template, can extend RNA by several nucleotides in the absence of DNA, and has been implicated in the replication of the RNA genomes of hepatitis delta virus (HDV) and plant viroids. Here we show the intrinsic RdRP activity of Pol II with only pure polymerase, an RNA template-product scaffold and nucleoside triphosphates (NTPs). Crystallography reveals the template-product duplex in the site occupied by the DNA-RNA hybrid during transcription. RdRP activity resides at the active site used during transcription, but it is slower and less processive than DNA-dependent activity. RdRP activity is also obtained with part of the HDV antigenome. The complex of transcription factor IIS (TFIIS) with Pol II can cleave one HDV strand, create a reactive stem-loop in the hybrid site, and extend the new RNA 3' end. Short RNA stem-loops with a 5' extension suffice for activity, but their growth to a critical length apparently impairs processivity. The RdRP activity of Pol II provides a missing link in molecular evolution, because it suggests that Pol II evolved from an ancient replicase that duplicated RNA genomes.
About this Structure
2R93 is a Protein complex structure of sequences from Saccharomyces cerevisiae. Full crystallographic information is available from OCA.
Reference
Molecular basis of RNA-dependent RNA polymerase II activity., Lehmann E, Brueckner F, Cramer P, Nature. 2007 Nov 15;450(7168):445-9. PMID:18004386
Page seeded by OCA on Thu Mar 20 18:33:40 2008
Categories: DNA-directed RNA polymerase | Protein complex | Saccharomyces cerevisiae | Brueckner, F. | Cramer, P. | Lehmann, E. | MG | ZN | Cytoplasm | Ddrp | Dna damage | Dna repair | Dna-binding | Dna-directed rna polymerase | Elongation complex | Hdv | Hepatitis delta virus | Magnesium | Metal-binding | Mrna processing | Nuclear protein | Nucleotidyltransferase | Nucleus | Phosphorylation | Polymorphism | Rdrp | Rna polymerase ii | Rna-binding | Rna-dependent | Rna-dependent rna synthesis | Transcription | Transcription bubble | Transferase | Transferase/dna/rna | Transferase/rna complex | Ubl conjugation | Zinc | Zinc-finger
