X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 296.0
Details 20% PEG3350, 0.1M sodium Hepes pH 7.0, 2% (v/v) Tacsimate pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.52 α = 90
b = 110.78 β = 97.08
c = 67.91 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M Oxford Danfysik/SESO Two stage demagnification using two K-B pairs of bimorph type mirrors 2010-09-27
Diffraction Radiation
Monochromator Protocol
ACCEL Fixed exit Double Crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I24 0.9778 Diamond I24

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
2.23 46.14 99.0 0.1 0.1 -- 3.7 46924 46924 1.0 1.0 41.6
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)
2.231 2.3 99.7 0.561 0.561 2.5 3.8 3465

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 2.231 46.14 -- -- -- 44525 2373 97.18 -- 0.20189 0.20041 0.22983 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 2.231 2.289 -- 142 2474 0.308 0.37 -- 73.75
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 40.111
Anisotropic B[1][1] -3.64
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -11.31
Anisotropic B[2][2] 9.63
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.99
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 22.291
r_dihedral_angle_3_deg 16.289
r_bond_refined_d 0.013
r_dihedral_angle_2_deg 35.929
r_scbond_it 1.973
r_dihedral_angle_1_deg 5.98
r_mcbond_it 0.85
r_chiral_restr 0.092
r_angle_refined_deg 1.592
r_gen_planes_refined 0.006
r_mcangle_it 1.564
r_scangle_it 3.227
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5474
Nucleic Acid Atoms 0
Heterogen Atoms 83
Solvent Atoms 221

Software

Software
Software Name Purpose
GDA data collection
PHASER phasing
REFMAC refinement version: 5.5.0109
XDS data reduction
SCALA data scaling