X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 291.0
Details PEG3350, PEG400, magnesium chloride

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 96.5 α = 90
b = 96.5 β = 90
c = 95.86 γ = 120
Symmetry
Space Group P 31

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2014-01-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON LNLS BEAMLINE W01B-MX2 1.459 LNLS W01B-MX2

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
2.15 50 97.6 0.2 -- -- 5.3 -- 53072 -- -3.0 36.459
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)
2.15 2.28 96.1 -- -- -- -- --

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 2.15 43.14 -- 0.0 -- 50382 2696 97.63 -- 0.1903 0.1879 0.2338 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 2.149 2.205 -- 189 3617 0.266 0.341 -- 95.68
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.885
Anisotropic B[1][1] 0.2
Anisotropic B[1][2] 0.2
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.63
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.776
r_angle_other_deg 0.858
r_bond_other_d 0.001
r_chiral_restr 0.097
r_mcbond_it 2.271
r_dihedral_angle_1_deg 6.268
r_mcangle_it 3.072
r_bond_refined_d 0.016
r_mcbond_other 2.267
r_gen_planes_other 0.001
r_dihedral_angle_4_deg 17.712
r_dihedral_angle_3_deg 14.127
r_gen_planes_refined 0.009
r_dihedral_angle_2_deg 36.13
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5374
Nucleic Acid Atoms 0
Heterogen Atoms 88
Solvent Atoms 285

Software

Software
Software Name Purpose
REFMAC refinement version: 5.7.0032
XDS data scaling
PDB_EXTRACT data extraction version: 3.15
MOLREP phasing
XSCALE data scaling