X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 292.0
Details 0.1M CaCl2 0.05M HEPES pH=7 10% PEG 6000 0.005M Betaine HCl

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 88.44 α = 90
b = 88.44 β = 90
c = 119.34 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV++ -- 2013-12-18
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 1.5418 -- --

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
2.3 50 100.0 0.085 -- -- 12.0 -- 24579 0.0 0.0 --
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)
2.3 2.34 100.0 0.58 -- -- 5.2 --

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 2.3 50.0 -- -- -- 23291 1256 99.69 -- 0.20899 0.20691 0.24927 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 2.298 2.358 -- 89 1647 0.222 0.264 -- 96.12
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 56.198
Anisotropic B[1][1] -0.41
Anisotropic B[1][2] -0.2
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.41
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.32
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 37.013
r_angle_refined_deg 1.579
r_dihedral_angle_3_deg 15.045
r_gen_planes_refined 0.006
r_chiral_restr 0.088
r_mcangle_it 1.713
r_dihedral_angle_4_deg 13.916
r_mcangle_other 1.652
r_angle_other_deg 0.968
r_mcbond_it 1.066
r_mcbond_other 0.989
r_dihedral_angle_1_deg 7.929
r_long_range_B_refined 5.048
r_bond_other_d 0.002
r_scbond_other 1.273
r_bond_refined_d 0.013
r_gen_planes_other 0.002
r_long_range_B_other 5.048
r_scbond_it 1.273
r_scangle_other 2.119
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3226
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 62

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0171
HKL-2000 data reduction
HKL-2000 data scaling
PHASER phasing