9ZH9 | pdb_00009zh9

ELECTRON MICROSCOPY

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	9OV3

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	24.402
f_angle_d	0.515
f_chiral_restr	0.025
f_plane_restr	0.003
f_bond_d	0.002

Sample
ribonuclease P RNA

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details	Grids were glow-discharged on both sides prior to vitrification. Vitrification was performed using a Vitrobot Mark IV with a 10s wait time, followed b ...	Grids were glow-discharged on both sides prior to vitrification. Vitrification was performed using a Vitrobot Mark IV with a 10s wait time, followed by a 3s blot and blot force 3 to 10

Map-Model Fitting and Refinement
Id	1 (9OV3)
Refinement Space	REAL
Refinement Protocol	FLEXIBLE FIT
Refinement Target	maximization of map-to-model correlation
Overall B Value
Fitting Procedure
Details

Data Acquisition
Detector Type	FEI FALCON IV (4k x 4k)
Electron Dose (electrons/Å**2)	53

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION		21475910	An iterative particle-cleaning workflow was applied, combining 2D classification and heterogeneous refinement with decoy classes to achieve exhaustive particle selection.

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.