X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion
Temperature 289.0
Details 0.2 M sodium fluoride, 22.5% PEG3350, VAPOR DIFFUSION, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 127.17 α = 90
b = 114.64 β = 90
c = 69.5 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 MIRRORS 2012-11-11
Diffraction Radiation
Monochromator Protocol
Rosenbaum-Rock high-resolution double-crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.9792 APS 19-ID

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
2.54 50 98.9 0.108 -- -- 5.0 -- 33838 -- -- 34.9
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)
2.54 2.58 97.2 0.571 -- 2.3 4.6 1632

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 2.54 46.96 -- 0.0 -- 31612 1606 92.48 -- 0.2366 0.2347 0.2723 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 2.54 2.608 -- 70 1337 0.26 0.292 -- 57.26
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.2763
Anisotropic B[1][1] -1.71
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.31
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.006
r_gen_planes_refined 0.008
r_chiral_restr 0.07
r_dihedral_angle_4_deg 15.009
r_dihedral_angle_3_deg 15.59
r_dihedral_angle_2_deg 36.453
r_dihedral_angle_1_deg 5.963
r_angle_other_deg 1.184
r_angle_refined_deg 1.356
r_bond_other_d 0.007
r_bond_refined_d 0.013
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6787
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 94

Software

Computing
Computing Package Purpose
HKL3000 Data Reduction (intensity integration)
HKL3000 Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.7.0029 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 refinement
MOLREP molecular replacement
HKL data reduction