X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.0
Details Ammonium sulphate, Cadmium sulphate

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 180.89 α = 90
b = 180.89 β = 90
c = 180.89 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
CCD ADSC QUANTUM 315r -- 2014-06-24
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL38B1 1.03586, 1.05777 SPring-8 BL38B1

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
1.95 40 99.9 -- -- -- 11.0 -- 19055 -- -- --
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)
-- -- 100.0 -- -- 12.8 11.3 --

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
MAD 1.95 31.98 -- -- -- 18055 981 99.72 -- 0.17871 0.17734 0.20494 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 1.95 2.0 -- 63 1323 0.211 0.261 -- 99.93
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 29.491
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_dihedral_angle_3_deg 15.879
r_scbond_other 4.22
r_mcbond_it 2.62
r_angle_refined_deg 1.939
r_bond_refined_d 0.02
r_dihedral_angle_4_deg 22.583
r_long_range_B_other 7.672
r_bond_other_d 0.003
r_mcbond_other 2.594
r_scbond_it 4.37
r_angle_other_deg 1.061
r_gen_planes_refined 0.009
r_mcangle_it 3.607
r_dihedral_angle_2_deg 34.51
r_scangle_other 6.596
r_chiral_restr 0.113
r_gen_planes_other 0.002
r_long_range_B_refined 7.754
r_dihedral_angle_1_deg 5.302
r_mcangle_other 3.611
Coordinate Error
Parameter Value
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1341
Nucleic Acid Atoms 0
Heterogen Atoms 29
Solvent Atoms 77

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0135
MOLREP data reduction
HKL-2000 data scaling