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_dihedral_angle_d 14.379
f_angle_d 0.519
f_bond_d 0.002
f_plane_restr 0.002
f_chiral_restr 0.034
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
PHASER model building
PHENIX version: (PHENIX.REFINE) refinement