2vum | pdb_00002vum

Alpha-amanitin inhibited complete RNA polymerase II elongation complex

spinqualitylabelsall models 2vum, resolution 3.40Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 2vum is a 16 chain structure with sequence from Amanita phalloides and Saccharomyces cerevisiae. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: MG, ZN NonStd Res: BRU, CSX, HYP, ILX, TRX Related: 1k83, 3cqz, 1twc, 1i6h, 1y1v, 1y77, 1y1y, 1wcm, 1r9s, 1twg, 1sfo, 1i50, 1twa, 1r5u, 1nik, 1twh, 1r9t, 2ja7, 2ja6, 1a1d, 1dzf, 1y14, 1y1w, 1nt9, 2b63, 1twf, 1i3q, 1pqv, 2b8k, 2ja8, 2ja5 Activity: DNA-directed RNA polymerase, with EC number 2.7.7.6 Resources: FirstGlance, OCA, RCSB, PDBsum Evolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMed To study how RNA polymerase II translocates after nucleotide incorporation, we prepared elongation complex crystals in which pre- and post-translocation states interconvert. Crystal soaking with the inhibitor alpha-amanitin locked the elongation complex in a new state, which was refined at 3.4-A resolution and identified as a possible translocation intermediate. The DNA base entering the active site occupies a 'pretemplating' position above the central bridge helix, which is shifted and occludes the templating position. A leucine residue in the trigger loop forms a wedge at the shifted bridge helix, but moves by 13 A to close the active site during nucleotide incorporation. Our results support a Brownian ratchet mechanism that involves swinging of the trigger loop between open, wedged and closed positions, and suggest that alpha-amanitin impairs nucleotide incorporation and translocation by trapping the trigger loop and bridge helix. Structural basis of transcription inhibition by alpha-amanitin and implications for RNA polymerase II translocation.,Brueckner F, Cramer P Nat Struct Mol Biol. 2008 Aug;15(8):811-8. Epub 2008 Jun 13. PMID:18552824 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See Also RNA polymerase

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