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Bovine rod PDE6 holoenzyme in complex with the Fab fragment from the ROS-1 monoclonal antibody
Sample Components
Rod cGMP-specific 3',5'-cyclic phosphodiesterase
monoclonal antibody Fab fragment of ROS-1
Specimen Preparation
Sample Aggregation State
PARTICLE
Vitrification Instrument
FEI VITROBOT MARK III
Cryogen Name
ETHANE
Sample Vitrification Details
Applied 3 uL 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 21,100 particles were picked from ice images and CTF corrected using Ctfit. After an initial 3D model was generated as described for PDE6, ...
A total of 21,100 particles were picked from ice images and CTF corrected using Ctfit. After an initial 3D model was generated as described for PDE6, three noise-seeded models were generated and used as initial models in the Multirefine procedure. A model with two Ros-1 Fab bound with a population of ~15,000 particles emerged and was subjected to further refinement using standard iterative projection matching, class averaging, and Fourier reconstruction. The final 3D maps with C2 symmetry were generated from 12,373 particles.
Refinement Type
Symmetry Type
POINT
Point Symmetry
C2
Map-Model Fitting and Refinement
Id
Refinement Space
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details
1 (3DBA)
REAL
RIGID BODY FIT
REFINEMENT PROTOCOL--rigid body DETAILS--Domains w ...
REFINEMENT PROTOCOL--rigid body DETAILS--Domains were separately fitted by
manual docking and Fit in Map in Chimera. The fitting of GFA(A,B) was confirmed
using Folderhunter.