X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.7
Temperature 277.0
Details 0.06M Tris, 0.1M magnesium sulfate, 20% PEG 4000, pH 7.7, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.49 α = 90
b = 93.06 β = 92.72
c = 89 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV++ -- 2008-02-01
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 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
1.6 28.35 98.4 0.043 -- -- 2.45 274833 112134 3.0 2.0 --

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 1.6 28.12 -- -- 114028 106316 5612 98.16 -- 0.17484 0.17294 0.20981 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 1.6 1.641 -- 351 6806 0.46 0.498 -- 85.57
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.434
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.01
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_sphericity_bonded 1.238
r_sphericity_free 3.394
r_rigid_bond_restr 1.065
r_scangle_it 3.048
r_scbond_it 2.054
r_mcangle_it 1.307
r_mcbond_other 0.31
r_bond_refined_d 0.011
r_bond_other_d 0.001
r_angle_refined_deg 1.402
r_angle_other_deg 0.851
r_dihedral_angle_1_deg 6.908
r_dihedral_angle_2_deg 34.373
r_dihedral_angle_3_deg 11.243
r_dihedral_angle_4_deg 11.778
r_chiral_restr 0.085
r_gen_planes_refined 0.01
r_gen_planes_other 0.002
r_mcbond_it 0.812
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7116
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 907

Software

Computing
Computing Package Purpose
CrystalClear Data Collection
d*TREK Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.5.0110 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0110 refinement
PHASER model building
CrystalClear data collection