X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4
Temperature 295.5
Details 90mM tripostassium citrate, 100mM sodium acetate, 5% (wt/vol) PEG 6000, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 295.5K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 158.16 α = 90
b = 158.16 β = 90
c = 166.11 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2008-11-05
Diffraction Radiation
Monochromator Protocol
double-crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.9793 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
2.4 45.66 96.1 0.08 -- -- 3.71 30140 30094 0.0 0.0 55.46
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)
2.4 2.49 97.9 0.544 -- 2.0 5.65 3050

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 2.4 45.657 -- 1.34 -- 30094 1517 95.99 -- 0.199 0.198 0.219 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 2.3999 2.4857 2872 169 2872 0.3045 0.3345 -- 98.0
X Ray Diffraction 2.4857 2.5852 2856 160 2856 0.2876 0.359 -- 97.0
X Ray Diffraction 2.5852 2.7029 2860 141 2860 0.2555 0.3186 -- 97.0
X Ray Diffraction 2.7029 2.8453 2869 153 2869 0.242 0.2748 -- 97.0
X Ray Diffraction 2.8453 3.0236 2867 155 2867 0.2199 0.2449 -- 97.0
X Ray Diffraction 3.0236 3.257 2857 157 2857 0.2161 0.2392 -- 96.0
X Ray Diffraction 3.257 3.5846 2873 145 2873 0.1941 0.2323 -- 96.0
X Ray Diffraction 3.5846 4.103 2862 133 2862 0.1635 0.1805 -- 95.0
X Ray Diffraction 4.103 5.1683 2827 156 2827 0.1357 0.1513 -- 95.0
X Ray Diffraction 5.1683 45.6651 2834 148 2834 0.1448 0.1587 -- 92.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 64.169
Anisotropic B[1][1] -6.508
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -6.508
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 13.015
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.065
f_dihedral_angle_d 16.884
f_angle_d 1.02
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1949
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 82

Software

Computing
Computing Package Purpose
EPICS-based beamline control and data acquisition systems Data Collection
d*TREK Data Reduction (intensity integration)
d*TREK Data Reduction (data scaling)
SHARP Structure Solution
PHENIX (phenix.refine: 1.4_151) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.4_151) refinement
SHARP model building
data version: acquisition systems data collection
EPICS-based version: beamline control data collection