X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details 0.1M Imidazole pH 7.0, 20% PEG 6,000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.88 α = 90
b = 104.31 β = 95.32
c = 116.14 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD m 2018-01-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.3 30 100.0 0.059 -- -- 3.8 -- 451144 -- -- --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.3 1.35 100.0 0.556 -- -- 3.7 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.3 29.82 -- 0.0 -- 446480 4625 99.82 -- 0.1198 0.1195 0.1467 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.3 1.334 -- 361 32382 0.197 0.215 0.0 98.13
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.252
Anisotropic B[1][1] -0.07
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.1
Anisotropic B[2][2] 0.17
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.09
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 1.035
r_angle_refined_deg 1.765
r_sphericity_bonded 9.268
r_chiral_restr 0.083
r_dihedral_angle_1_deg 6.627
r_dihedral_angle_3_deg 13.782
r_gen_planes_refined 0.01
r_bond_refined_d 0.011
r_gen_planes_other 0.006
r_bond_other_d 0.001
r_dihedral_angle_2_deg 39.695
r_dihedral_angle_4_deg 15.32
r_rigid_bond_restr 2.482
r_sphericity_free 17.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10408
Nucleic Acid Atoms 0
Heterogen Atoms 3745
Solvent Atoms 2472

Software

Software
Software Name Purpose
REFMAC refinement
SCALEPACK data scaling
PDB_EXTRACT data extraction version: 3.24
HKL-2000 data reduction
MOLREP phasing