REL PDBe PDBe PDBe 2010-10-21 2010-12-24 2011-07-19 2011-07-19 Saccharomyces cerevisiae ribonucleotide reductase hole complex at the presence of dATP Fairman JW Wijerathna SR Ahmad MF Xu H Nakano R Jha S Prendergast J Welin RM Flodin S Roos A Nordlund P Li Z Walz T Dealwis CG Ribonucleotide reductase, hexamer, dimer Fairman JW Wijerathna SR Ahmad MF Xu H Nakano R Jha S Prendergast J Welin RM Flodin S Roos A Nordlund P Li Z Walz T Dealwis CG Structural basis for allosteric regulation of human ribonucleotide reductase by nucleotide-induced oligomerization. NAT.STRUCT.MOL.BIOL. 18 316 322 2011 21336276 doi:10.1038/nsmb.2007 Yeast ribonucleotide reductase complex Yeast ribonucleotide reductase complex One homohexamer of yeast RR1 binds to one hetero-dimer of yeast RR2.RR4 2 0.7 0.68 Size exclusion chromatography Yeast ribonucleotide reductase RR1 Saccharomyces cerevisiae Baker's yeast true Yeast ribonucleotide reductase RR2.RR4 Saccharomyces cerevisiae Baker's yeast true singleParticle particle 0.1 8.5
50mM Ammonium actate,5mM MgCl2, 0.1M KCl, 50uM dATP,100uM hydroxyurea with 5% glycerol
 NEGATIVE
Grids with adsorbed protein was stained on 0.75% w/v uranyl formate for 30 seconds.
Quantifoil R2/1 Coppor grid
 NITROGEN OTHER FEI TECNAI F20 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 2 50000.0 49883.0 GATAN LIQUID NITROGEN Objective lens astigmatism was corrected at 150,000 times magnificatioin KODAK SO-163 FILM ZEISS SCAI 4.2 52 Side entry liquid nitrogen-cooled cryo specimen holder 50
The quantifoil grids are pre-coated with continuous carbon film. 5 ul sample is applied onto the carbon film grid,wait for 30 seconds, blot from side, wash it in a drop of water, blot from side, stain in a drop of 0.75% uranyl formate for 30 seconds, with the sample side facing up insert into a drop of 0.75% uranyl formate where a small piece of carbon film has been floated, pick up the carbon film from underneath, gently blot from both side. Monitor the thickness of the remaining sample between two carbon films . When the thickness is becoming right (milky in color), plunge it into liquid nitrogen to freeze. Look at the grid with cryo EM procedure.
C1 OTHER 28.0 FSC 0.5 CUT-OFF SPIDER
The final map was calculated from a selected sub-data-set based on 2D classification using Back Projection and Angular Refinement routines in Spider.
829 50 emd_1807.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 -4 -4 -4 128 128 128 396.8 396.8 396.8 90 90 90 X Y Z -0.131972 0.55113 0.012938 0.0596164 3.1 3.1 3.1 0.268 AUTHOR This is an EM map of Yeast dATP Ribonucleotide Reductase complex
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 1JK0 RIGID BODY FIT Camera
Protocol: Rigid Body. The Yeast RR1.dATP hexamer (3PAW) was fitted into the EM density map and the Yeast RR2.RR4 heterodimer (1JK0) was fitted into the difference map using camera fit in map function.
REAL 3PAW RIGID BODY FIT Camera
Protocol: Rigid Body. The Yeast RR1.dATP hexamer (3PAW) was fitted into the EM density map and the Yeast RR2.RR4 heterodimer (1JK0) was fitted into the difference map using camera fit in map function.
REAL