Find PDB structures and Computed Structure Models (CSM) by combining queries from tools in this suite: Attribute Search, Sequence Similarity, Sequence Motif, 3D Similarity, and 3D Motif with 'AND' logic.
Post-targeting aCASCADE Type IA CRISPR_Cas Surveillance Complexes
ELECTRON MICROSCOPY
Starting Model(s)
Initial Refinement Model(s)
Type
Source
Accession Code
Details
in silico model
AlphaFold
Sample
Type I-A CRISPR-Cas post-targeting surveillance subcomplex from Saccharolobus solfataricus
Specimen Preparation
Sample Aggregation State
PARTICLE
Vitrification Instrument
FEI VITROBOT MARK IV
Cryogen Name
ETHANE
Sample Vitrification Details
Blot time: 4 seconds
Blot force: 5
3D Reconstruction
Reconstruction Method
SINGLE PARTICLE
Number of Particles
379635
Reported Resolution (Å)
2.94
Resolution Method
FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type
POINT
Point Symmetry
C1
Map-Model Fitting and Refinement
Id
1
Refinement Space
REAL
Refinement Protocol
FLEXIBLE FIT
Refinement Target
Correlation Coefficient
Overall B Value
406
Fitting Procedure
Details
Alphafold 3 homology model including RNA was rigid body fit into the density. DNA modeling was ab initio. After rigid body fitting, iterative real-spa ...
Alphafold 3 homology model including RNA was rigid body fit into the density. DNA modeling was ab initio. After rigid body fitting, iterative real-space refinement and model building with PHENIX and Coot was performed.
Data Acquisition
Detector Type
GATAN K3 (6k x 4k)
Electron Dose (electrons/Å**2)
55.3
Imaging Experiment
1
Date of Experiment
Temperature (Kelvin)
Microscope Model
TFS TALOS
Minimum Defocus (nm)
500
Maximum Defocus (nm)
2500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
2.7
Imaging Mode
BRIGHT FIELD
Specimen Holder Model
FISCHIONE INSTRUMENTS DUAL AXIS TOMOGRAPHY HOLDER
Nominal Magnification
36000
Calibrated Magnification
Source
FIELD EMISSION GUN
Acceleration Voltage (kV)
200
Imaging Details
EM Software
Task
Software Package
Version
PARTICLE SELECTION
cryoSPARC
IMAGE ACQUISITION
SerialEM
CTF CORRECTION
cryoSPARC
MODEL FITTING
Coot
INITIAL EULER ASSIGNMENT
cryoSPARC
FINAL EULER ASSIGNMENT
cryoSPARC
CLASSIFICATION
cryoSPARC
RECONSTRUCTION
cryoSPARC
MODEL REFINEMENT
PHENIX
Image Processing
CTF Correction Type
CTF Correction Details
Number of Particles Selected
Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION
5400000
Following blob picking and washing with 2D classification