REL RCSB RCSB RCSB 2012-03-06 2012-04-05 2012-05-15 2012-05-15 Cryo-EM map of a yeast minimal preinitiation complex interacting with the Mediator Head module Cai G Chaban Y Imasaki T Kovacs JA Calero G Penczek PA Takagi Y Asturias FJ transcription, RNA polymerase II, Mediator, Head module, preinitiation complex Cai G Chaban YL Imasaki T Kovacs JA Calero G Penczek PA Takagi Y Asturias FJ Interaction of the mediator head module with RNA polymerase II. STRUCTURE 20 899 910 2012 22579255 doi:10.1016/j.str.2012.02.023 3j1n FULLOVERLAP 3j1o FULLOVERLAP Complex of RNA polymerase II, Mediator Head module, TFIIF, TFIIB, TBP, and promoter DNA Complex of RNA polymerase II, Mediator Head module, TFIIF, TFIIB, TBP, and promoter DNA
Although biochemical and functional evidence indicates the presence of all 6 original components (RNA polymerase II, Mediator Head, TFIIF, TFIIB, TBP, DNA), only 3 components (RNA polymerase II, Mediator Head, TFIIF) can be clearly identified in the cryo-EM map.
6 0.9 sequence RNA polymerase II Saccharomyces cerevisiae yeast 0.54 1 false Head module Saccharomyces cerevisiae yeast 0.24 1 true unidentified baculovirus pBakPAC TFIIF Saccharomyces cerevisiae yeast 0.15 1 false singleParticle particle 0.3 8.0
25 mM KCl, 25 mM Tris-HCl, 10 mM DTT
400 mesh Cu/Rh grids, coated with a perforated carbon film and glow discharged in the presence of amylamine
 ETHANE 95 77 HOMEMADE PLUNGER Blot for ~2 sec before plunging FEI TECNAI F20 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 120 2.0 0.8 3.8 50000.0 GATAN LIQUID NITROGEN 77 120 115 Objective lens astigmatism was corrected at 125,000X magnification 2008-07-30 TVIPS TEMCAM-F415 (4k x 4k) 500 10 8.
Each CCD frame
 OTHER 16.0 FSC 0.5 CUT-OFF Sparx,Spider 51000 emd_5407.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 70 70 70 0 0 0 70 70 70 268.1 268.1 268.1 90.0 90.0 90.0 X Y Z -4.34038925 32.475795750000003 0.5565064 2.3740778 3.83 3.83 3.83 3.25 AUTHOR Cryo-EM map of a complex including RNA polymerase II, Mediator Head module, TFIIF, TFIIB, TBP, and promoter DNA. TFIIB, TBP, and DNA are not visible in the map and are presumed to be disordered
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 1WCM A B C D E F G H I J K L RIGID BODY FIT Monte Carlo Docking Analysis
Protocol: Rigid body fitting of individual RNA polymerase II structural modules. Fitted individual structural modules previously identified by X-ray crystallographic studies of RNA polymerase II under different crystallization conditions
REAL 3RJ1 A B C D E F G RIGID BODY FIT Monte Carlo Docking Analysis
Protocol: Rigid body fitting of individual Mediator Head structural modules. Fitted individual structural modules previously identified by EM and X-ray crystallographic studies of the Head module
REAL