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MicroED structure of a FIB-milled CypA Crystal
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4YUM PDB entry 4YUM
Crystallization Crystal Properties Matthews coefficient Solvent content 2.75 55.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.4 α = 90 b = 53.4 β = 90 c = 87.76 γ = 90
Symmetry Space Group P 21 21 21
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) Mean Isotropic B ELECTRON CRYSTALLOGRAPHY MOLECULAR REPLACEMENT FREE R-VALUE PDB entry 4YUM 2.5 26.48 1.34 11440 396 86.01 0.1867 0.1854 0.2237 30.6
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.8187 f_angle_d 0.7321 f_chiral_restr 0.0545 f_bond_d 0.0112 f_plane_restr 0.0053
Software Software Software Name Purpose PHENIX refinement PHASER phasing XDS data scaling XDS data reduction
Sample Peptidyl-prolyl cis-trans isomerase A
Specimen Preparation Sample Aggregation State 3D ARRAY Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method CRYSTALLOGRAPHY Number of Particles Reported Resolution (Å) 2.5 Resolution Method DIFFRACTION PATTERN/LAYERLINES Other Details Refinement Type Symmetry Type 3D CRYSTAL Space Group Name Length a 42.4 Length b 53.4 Length c 53.4 Angle Alpha 90 Angle Beta 90 Angle Gamma 90
Map-Model Fitting and Refinement Id 1 (4YUM) Refinement Space RECIPROCAL Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type TVIPS TEMCAM-F416 (4k x 4k) Electron Dose (electrons/Å**2) 0.06
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode DIFFRACTION Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version MODEL FITTING PHENIX dev2880 MOLECULAR REPLACEMENT PHENIX dev2880 RECONSTRUCTION PHENIX dev2880 MODEL REFINEMENT PHENIX 1.16-3549
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE