X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 298.0
Details 50 MM TRIS-HCL, 19% PEG350, 180 MM CALCIUM CHLORIDE,, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.36 α = 90
b = 118.63 β = 90
c = 126.31 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 95
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2010-06-18
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1.00 APS 22-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
2.37 50 98.7 0.07 -- -- -- 46949 44309 0.0 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)
2.37 2.44 98.7 0.453 -- -- -- --

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 2.371 44.642 -- 1.34 -- 44309 2413 97.55 -- 0.1743 0.1717 0.2241 --
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 2.3713 2.4197 -- 107 2108 0.2827 0.3483 -- 76.0
X Ray Diffraction 2.4197 2.4723 -- 139 2665 0.2651 0.277 -- 98.0
X Ray Diffraction 2.4723 2.5298 -- 124 2680 0.2588 0.3306 -- 98.0
X Ray Diffraction 2.5298 2.593 -- 158 2669 0.2464 0.2826 -- 98.0
X Ray Diffraction 2.593 2.6631 -- 159 2691 0.2371 0.273 -- 99.0
X Ray Diffraction 2.6631 2.7415 -- 149 2692 0.24 0.3098 -- 99.0
X Ray Diffraction 2.7415 2.83 -- 146 2713 0.2248 0.2634 -- 99.0
X Ray Diffraction 2.83 2.9311 -- 135 2740 0.2165 0.2478 -- 99.0
X Ray Diffraction 2.9311 3.0484 -- 143 2713 0.2099 0.2949 -- 99.0
X Ray Diffraction 3.0484 3.1871 -- 117 2767 0.195 0.2732 -- 99.0
X Ray Diffraction 3.1871 3.3551 -- 152 2710 0.1779 0.2107 -- 99.0
X Ray Diffraction 3.3551 3.5652 -- 142 2736 0.1576 0.2417 -- 99.0
X Ray Diffraction 3.5652 3.8404 -- 158 2783 0.1505 0.2132 -- 99.0
X Ray Diffraction 3.8404 4.2266 -- 147 2765 0.129 0.1709 -- 100.0
X Ray Diffraction 4.2266 4.8375 -- 140 2801 0.1157 0.1689 -- 100.0
X Ray Diffraction 4.8375 6.0923 -- 166 2813 0.1327 0.1877 -- 100.0
X Ray Diffraction 6.0923 44.6497 -- 131 2988 0.1539 0.1939 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.8106
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -4.8129
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.0023
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.052
f_dihedral_angle_d 11.451
f_angle_d 0.764
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7210
Nucleic Acid Atoms 651
Heterogen Atoms 39
Solvent Atoms 534

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHENIX (PHENIX.REFINE: 1.7_650) Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE: 1.7_650) refinement
PHENIX version: (PHENIX.REFINE: 1.7_650) model building
HKL-2000 data collection