X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 75 MM SODIUM/POTASSIUM TARTRATE, 8.0% PEG 3350, 50 MM BIS-TRIS PROPANE, PH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 228.63 α = 90
b = 121.49 β = 91.64
c = 280.78 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
CCD ADSC -- 2008-03-02
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- 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
3.9 40 97.6 0.13 -- -- 3.5 -- 137476 -- -3.7 125.23
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)
3.9 4.1 92.0 0.69 -- 1.8 3.4 --

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 3.9 39.675 -- 1.34 -- 137444 2088 97.63 -- 0.2533 0.2531 0.2679 --
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 3.9 3.9907 -- 132 8356 0.3378 0.3476 -- 91.0
X Ray Diffraction 3.9907 4.0904 -- 130 8440 0.3232 0.3337 -- 92.0
X Ray Diffraction 4.0904 4.2008 -- 125 8671 0.3076 0.2892 -- 94.0
X Ray Diffraction 4.2008 4.3243 -- 137 8738 0.2912 0.3127 -- 95.0
X Ray Diffraction 4.3243 4.4637 -- 129 8929 0.2695 0.277 -- 97.0
X Ray Diffraction 4.4637 4.623 -- 139 9034 0.2581 0.2536 -- 99.0
X Ray Diffraction 4.623 4.8078 -- 137 9103 0.2512 0.2737 -- 99.0
X Ray Diffraction 4.8078 5.0262 -- 124 9239 0.2446 0.237 -- 100.0
X Ray Diffraction 5.0262 5.2906 -- 135 9202 0.2418 0.2746 -- 100.0
X Ray Diffraction 5.2906 5.6212 -- 168 9171 0.2467 0.2699 -- 100.0
X Ray Diffraction 5.6212 6.0539 -- 132 9238 0.2621 0.2824 -- 100.0
X Ray Diffraction 6.0539 6.6605 -- 141 9262 0.2602 0.2981 -- 100.0
X Ray Diffraction 6.6605 7.6184 -- 166 9261 0.2469 0.2799 -- 100.0
X Ray Diffraction 7.6184 9.576 -- 135 9311 0.2049 0.2241 -- 100.0
X Ray Diffraction 9.576 39.6773 -- 158 9401 0.2161 0.2183 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 158.8
Anisotropic B[1][1] -8.266
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -4.9722
Anisotropic B[2][2] -10.927
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 19.193
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_chiral_restr 0.034
f_dihedral_angle_d 14.379
f_angle_d 0.519
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 67266
Nucleic Acid Atoms 0
Heterogen Atoms 715
Solvent Atoms 8

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHASER model building