X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.2
Temperature 298.0
Details 0.49 M sodium phosphate monobasic, 0.96 M potassium phosphate dibasic, 10 mM triethylene glycol, 504 nM chymotrypsin, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 151.96 α = 90
b = 173.65 β = 90
c = 174.82 γ = 90
Symmetry
Space Group F 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-06-11
Diffraction Radiation
Monochromator Protocol
Double crystal, Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.1 0.92 ALS 8.2.1

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
2.64 43.4 99.47 -- -- -- 29.6 -- 34071 -- -3.0 --
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)
2.64 2.74 100.0 -- -- -- 30.1 --

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
SAD 2.64 43.4 -- 1.35 -- 33975 1720 99.47 -- 0.2065 0.2045 0.2452 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 2.64 2.7135 -- 150 2567 0.2642 0.3221 -- 96.0
X Ray Diffraction 2.7135 2.8011 -- 148 2664 0.232 0.3208 -- 100.0
X Ray Diffraction 2.8011 2.9012 -- 154 2660 0.2326 0.2477 -- 100.0
X Ray Diffraction 2.9012 3.0173 -- 131 2682 0.2312 0.3066 -- 100.0
X Ray Diffraction 3.0173 3.1546 -- 130 2694 0.2392 0.3069 -- 100.0
X Ray Diffraction 3.1546 3.3208 -- 140 2680 0.2361 0.2459 -- 100.0
X Ray Diffraction 3.3208 3.5288 -- 139 2694 0.2201 0.2866 -- 100.0
X Ray Diffraction 3.5288 3.8011 -- 168 2661 0.1879 0.236 -- 100.0
X Ray Diffraction 3.8011 4.1834 -- 155 2681 0.1661 0.2057 -- 100.0
X Ray Diffraction 4.1834 4.788 -- 141 2722 0.1493 0.18 -- 100.0
X Ray Diffraction 4.788 6.0299 -- 132 2746 0.1997 0.2126 -- 100.0
X Ray Diffraction 6.0299 43.4194 -- 132 2804 0.2091 0.2407 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 40.7875
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -22.6511
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -18.1364
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.076
f_dihedral_angle_d 13.376
f_angle_d 1.186
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6928
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 33

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHENIX Structure Solution
PHENIX (phenix.refine: 1.7.1_743) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.1_743) refinement
PHENIX model building
HKL-2000 data collection