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Bovine rod PDE6 holoenzyme in complex with the Fab fragment of monoclonal antibody ROS-1
Sample Components
Rod cGMP-specific 3',5'-cyclic phosphodiesterase
Fab fragment of monoclonal antibody ROS-1
Specimen Preparation
Sample Aggregation State
PARTICLE
Vitrification Instrument
FEI VITROBOT MARK III
Cryogen Name
ETHANE
Sample Vitrification Details
Applied 3 uL of sample per grid and blotted for 1 second before plunging into liquid ethane (FEI VITROBOT MARK III).
3D Reconstruction
Reconstruction Method
SINGLE PARTICLE
Number of Particles
12373
Reported Resolution (Å)
11
Resolution Method
FSC 0.143 CUT-OFF
Other Details
A total of 21100 particles were picked from ice images and CTF-corrected using Ctfit. Initial three-dimensional models were generated from either refe ...
A total of 21100 particles were picked from ice images and CTF-corrected using Ctfit. Initial three-dimensional models were generated from either reference-free class averages or from a cylinder. The two models were essentially similar. Three noise-seeded models were generated and used as initial models in Multirefine. A model with two Ros-1 Fabs bound emerged from a population of 15000 particles and was subjected to further refinement using standard iterative projection matching, class averaging, and Fourier reconstruction. The final three-dimensional map with C2 symmetry was generated from 12373 particles.
Refinement Type
Symmetry Type
POINT
Point Symmetry
C2
Map-Model Fitting and Refinement
Id
1 (3DBA, 3IBJ, 3JWR, 3JWR, 12E8, 12E8)
Refinement Space
REAL
Refinement Protocol
RIGID BODY FIT
Refinement Target
Overall B Value
Fitting Procedure
Details
REFINEMENT PROTOCOL--rigid body refinement DETAILS--The domains were fit using
Chimera. The model was refined using Phenix real-space refinement.