X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 293.0
Details citrate 0.191 M PEG 3350 4% 0.1 M Hepes pH7 0.1 M strontium chloride 2mM MnCl

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.75 α = 90
b = 60.13 β = 90
c = 132.78 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-06-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.939 ESRF ID14-4

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
1.85 66.4 99.5 0.056 -- -- 4.78 -- 40510 -- -- --
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)
1.85 1.89 -- 0.726 -- -- -- --

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 1.85 66.39 -- -- -- 38459 2017 99.32 -- 0.20816 0.20531 0.25931 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 1.854 1.902 -- 132 2769 0.329 0.373 -- 98.07
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 42.225
Anisotropic B[1][1] -0.41
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 5.64
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.23
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.006
r_angle_refined_deg 1.478
r_sphericity_free 39.956
r_bond_refined_d 0.012
r_sphericity_bonded 19.743
r_mcangle_it 3.884
r_long_range_B_refined 5.616
r_scbond_it 4.378
r_chiral_restr 0.092
r_mcbond_it 3.232
r_rigid_bond_restr 1.899
r_dihedral_angle_4_deg 16.594
r_dihedral_angle_2_deg 33.105
r_dihedral_angle_1_deg 5.285
r_dihedral_angle_3_deg 12.669
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2734
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 198

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0103
XDS data reduction
XSCALE data scaling
PHASER phasing