X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.3
Details 1.8 M AMMONIUM SULPHATE, 100 MM CITRATE PH 6.3, 50 MM NA2SO3

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 131.55 α = 90
b = 131.55 β = 90
c = 189.52 γ = 120
Symmetry
Space Group P 63 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2011-09-30
Diffraction Radiation
Monochromator Protocol
SI(III) CRYSTAL MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PETRA III, EMBL C/O DESY BEAMLINE P14 (MX2) -- PETRA III, EMBL C/O DESY P14 (MX2)

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
1.5 113.93 99.9 0.1 -- -- 15.5 -- 153738 -- 2.0 --
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)
1.5 1.58 100.0 0.58 -- 4.0 9.9 --

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
ISOMORPHOUS REPLACEMENT 1.5 113.93 -- -- -- 145792 7712 99.86 -- 0.11847 0.11703 0.14605 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 1.5 1.539 -- 541 9983 0.17 0.226 -- 99.93
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.109
Anisotropic B[1][1] 0.52
Anisotropic B[1][2] 0.26
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.52
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.78
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 7.086
r_sphericity_free 24.641
r_rigid_bond_restr 2.383
r_gen_planes_other 0.001
r_gen_planes_refined 0.008
r_chiral_restr 0.087
r_dihedral_angle_4_deg 16.322
r_dihedral_angle_3_deg 11.53
r_dihedral_angle_2_deg 34.847
r_dihedral_angle_1_deg 6.259
r_angle_other_deg 0.947
r_angle_refined_deg 1.448
r_bond_other_d 0.001
r_bond_refined_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6014
Nucleic Acid Atoms 0
Heterogen Atoms 76
Solvent Atoms 671

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
REFMAC5 Structure Solution
REFMAC 5.6.0117 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.6.0117 refinement
REFMAC5 model building