X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
Temperature 291.0
Details 1M Sodium Potassium Phosphate pH 7.4

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 64.53 α = 90
b = 64.53 β = 90
c = 157.03 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2016-11-09
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALBA BEAMLINE XALOC 0.979290 ALBA XALOC

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
3.4 59.69 100.0 0.157 -- -- 23.9 -- 5025 -- -- --
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)
3.4 3.67 100.0 0.578 -- 8.5 25.2 989

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 3.4 59.69 -- -- -- 4739 246 99.94 -- 0.18301 0.18113 0.21585 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 3.4 3.488 -- 9 331 0.254 0.388 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 86.054
Anisotropic B[1][1] 6.58
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 6.58
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -13.17
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.223
r_mcangle_it 4.965
r_scbond_it 3.599
r_gen_planes_refined 0.005
r_chiral_restr 0.068
r_mcbond_it 2.973
r_long_range_B_other 8.083
r_mcbond_other 2.973
r_mcangle_other 4.963
r_bond_other_d 0.002
r_angle_other_deg 0.944
r_scangle_other 6.029
r_gen_planes_other 0.001
r_long_range_B_refined 8.085
r_dihedral_angle_1_deg 6.003
r_bond_refined_d 0.007
r_scbond_other 3.597
r_dihedral_angle_2_deg 34.924
r_dihedral_angle_4_deg 23.406
r_dihedral_angle_3_deg 14.241
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1310
Nucleic Acid Atoms 126
Heterogen Atoms 0
Solvent Atoms 1

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0158
XDS data reduction
Coot model building
Aimless data scaling