X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5
Temperature 298.0
Details 0.1M Hepes pH7.5, 14% PEG6000, 0.2M ammonium sulfate, 10% glycerol, pH 5.0, vapor diffusion, hanging drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.35 α = 89.32
b = 60.74 β = 86.64
c = 91.99 γ = 80.32
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX300HE TOROIDAL FOCUSING MIRROR 2011-09-27
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97949 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
2.33 50 98.5 0.148 -- -- 3.9 -- 48178 -- 0.0 19.92
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)
2.33 2.41 97.6 0.584 -- -- 3.7 --

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 2.45 29.94 -- 0.0 41810 41142 2946 98.5 -- 0.21 0.208 0.246 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 2.45 2.51 -- 213 2779 0.257 0.318 -- 97.33
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 24.191
Anisotropic B[1][1] 1.74
Anisotropic B[1][2] 0.13
Anisotropic B[1][3] 0.83
Anisotropic B[2][2] -1.68
Anisotropic B[2][3] 0.51
Anisotropic B[3][3] -0.21
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.12
r_bond_other_d 0.003
r_gen_planes_refined 0.005
r_gen_planes_other 0.003
r_dihedral_angle_3_deg 13.135
r_dihedral_angle_2_deg 33.58
r_bond_refined_d 0.008
r_dihedral_angle_4_deg 14.523
r_chiral_restr 0.056
r_angle_other_deg 1.142
r_dihedral_angle_1_deg 5.066
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8548
Nucleic Acid Atoms 0
Heterogen Atoms 89
Solvent Atoms 101

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MOLREP phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.11
HKL-2000 data reduction
HKL-2000 data scaling