X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9
Temperature 298.0
Details 1.6-2M magnesium chloride, 0.1M bicine, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 184.3 α = 90
b = 184.3 β = 90
c = 184.3 γ = 90
Symmetry
Space Group F 4 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M mirror 2012-02-18
Diffraction Radiation
Monochromator Protocol
Si111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.2399 ELETTRA 5.2R

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
1.27 24.63 97.2 0.052 -- -- 6.2 415932 67104 -- 2.0 12.9
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)
1.28 1.35 82.9 0.403 -- 2.0 3.4 8182

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 1.27 21.28 2.0 -- 67104 64389 3428 95.95 0.15159 0.15159 0.15035 0.17501 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 1.27 1.303 -- 176 3361 0.398 0.347 -- 69.16
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.938
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.067
r_sphericity_free 27.361
r_dihedral_angle_3_deg 12.871
r_rigid_bond_restr 1.586
r_angle_other_deg 1.03
r_angle_refined_deg 1.165
r_sphericity_bonded 10.589
r_gen_planes_refined 0.005
r_gen_planes_other 0.002
r_dihedral_angle_1_deg 4.517
r_dihedral_angle_4_deg 16.068
r_bond_other_d 0.002
r_dihedral_angle_2_deg 37.457
r_bond_refined_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1411
Nucleic Acid Atoms 0
Heterogen Atoms 27
Solvent Atoms 359

Software

Software
Software Name Purpose
MOLREP phasing
REFMAC refinement version: 5.7.0029
MOSFLM data reduction
SCALA data scaling