Experiment: 5VY5

Rabbit muscle aldolase using 200keV

ELECTRON MICROSCOPY

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	6.325
f_angle_d	0.827
f_chiral_restr	0.055
f_bond_d	0.011
f_plane_restr	0.006

Sample
Rabbit Muscle Aldolase

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	HOMEMADE PLUNGER
Cryogen Name	ETHANE
Sample Vitrification Details	3 uL of sample/grid was manually blotted for 4 seconds prior to immediate plunge-freezing in liquid nitrogen-cooled ethane.

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	83910
Reported Resolution (Å)	2.6
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT
Point Symmetry	D2

Map-Model Fitting and Refinement
Id	1
Refinement Space	REAL
Refinement Protocol	OTHER
Refinement Target	Maximum Likelihood
Overall B Value	35
Fitting Procedure
Details	Starting model was generated by stripping PDB entry 6ALD of all ligands and alternate conformations, then refining into the EM density using imposed s ...	Starting model was generated by stripping PDB entry 6ALD of all ligands and alternate conformations, then refining into the EM density using imposed symmetry while adjusting weighting/scoring according to estimated map resolution. The top 10 generated models (ranked based on quality metrics) were real-space refined using Phenix software.

Data Acquisition
Detector Type	GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)	68

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	FEI TALOS ARCTICA
Minimum Defocus (nm)	600
Maximum Defocus (nm)	2700
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2.7
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	45000
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	200
Imaging Details

EM Software
Task	Software Package	Version
PARTICLE SELECTION	FindEM
IMAGE ACQUISITION	Leginon	3.2
CTF CORRECTION	CTFFIND	4
CTF CORRECTION	Gctf	1.06
CTF CORRECTION	RELION	1.4
MODEL FITTING	Rosetta	2016.32.5883
MODEL REFINEMENT	PHENIX	1.11.1-2580
INITIAL EULER ASSIGNMENT	RELION	2.0
FINAL EULER ASSIGNMENT	RELION	2.0
RECONSTRUCTION	RELION	2.0

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION		1009341	Template-based particle picking was performed using templates generated from reference-free 2D classification of an initial set of automated particle picks.