Mouse mammary tumor virus strand transfer complex intasome
ELECTRON MICROSCOPY
Sample
MMTV strand transfer complex intasome
Specimen Preparation
Sample Aggregation State
PARTICLE
Vitrification Instrument
HOMEMADE PLUNGER
Cryogen Name
ETHANE
Sample Vitrification Details
Cryo-EM grids were prepared by freezing using a manual plunger in cold room at 4C
3D Reconstruction
Reconstruction Method
SINGLE PARTICLE
Number of Particles
50196
Reported Resolution (Å)
3.5
Resolution Method
FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type
POINT
Map-Model Fitting and Refinement
Id
1
Refinement Space
REAL
Refinement Protocol
FLEXIBLE FIT
Refinement Target
CC
Overall B Value
Fitting Procedure
Details
Initial model building was accomplished by rigid-body fitting of the MMTV CSC structure downloaded from the Protein Data Bank (PDB ID: 3JCA) into the ...
Initial model building was accomplished by rigid-body fitting of the MMTV CSC structure downloaded from the Protein Data Bank (PDB ID: 3JCA) into the EM map in Chimera 1.14 by Fit in Map tool. Unmodeled protein and DNA residues were manually built in Coot 0.9.4.1 and the structure underwent a few iterative cycles of manual model re-building and real-space refinement in Phenix. Ramachandran and secondary structure restraints were applied. To model the full octameric intasome, we additionally rigid-body docked the flanking IN dimers (PDB ID: 5CZ2) into the map. The density connecting the flanking dimers and the core was evident, but broken, and therefore a model was not derived for the linker regions. The final model accounts for the complete octameric MMTV STC intasome with connections for the linker regions.
