X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 296.0
Details 80-120mM MgCl2, 8% glycerol, 10% PEG 3350, 100mM HEPES pH 7.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.08 α = 90
b = 100.22 β = 105.12
c = 93.99 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 RAYONIX MX-300 -- 2013-11-26
Diffraction Radiation
Monochromator Protocol
ACCEL/BRUKER double crystal monochromator (DCM), featuring indirectly cryo-cooled first crystal and sagittally focusing second crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.9795 CLSI 08ID-1

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
2.2 90.74 100.0 0.115 -- -- 4.3 -- 81903 -- -- 10.563
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)
2.2 2.24 100.0 1.022 -- 1.8 4.3 --

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
FOURIER SYNTHESIS 2.2 90.74 -- -- -- 77748 4128 99.95 -- 0.17378 0.17191 0.20893 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 2.2 2.257 -- 311 5693 0.28 0.298 -- 99.63
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 50.781
Anisotropic B[1][1] 0.07
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.05
Anisotropic B[2][2] 0.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.06
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.658
r_scbond_other 3.279
r_gen_planes_other 0.007
r_mcangle_other 3.457
r_long_range_B_refined 7.849
r_long_range_B_other 7.849
r_mcbond_other 2.355
r_mcangle_it 3.457
r_bond_refined_d 0.016
r_scbond_it 3.279
r_scangle_other 5.084
r_dihedral_angle_3_deg 13.628
r_chiral_restr 0.104
r_dihedral_angle_2_deg 36.466
r_mcbond_it 2.355
r_bond_other_d 0.008
r_gen_planes_refined 0.009
r_angle_other_deg 1.354
r_dihedral_angle_4_deg 13.238
r_dihedral_angle_1_deg 5.939
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9788
Nucleic Acid Atoms 0
Heterogen Atoms 219
Solvent Atoms 634

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0073
MOSFLM data reduction version: 0.1.27
Aimless data scaling version: 0.3.11
Coot model building version: 0.7.2