X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 289.0
Details 0.1 M Imidazole:HCl pH 8.0 1.0 M Sodium Citrate Tribasic, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 101.47 α = 90
b = 101.47 β = 90
c = 42.68 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2011-10-30
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97926 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
1.8 50 94.1 -- 0.117 -- 6.9 22017 22017 0.0 0.0 14.11
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)
1.8 1.83 65.9 -- 0.49 4.2 4.2 769

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 1.803 43.939 -- 0.0 21999 21999 1131 94.12 0.154 0.154 0.152 0.195 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 1.8031 1.8851 1947 97 1850 0.1751 0.2287 -- 68.0
X Ray Diffraction 1.8851 1.9845 2482 133 2349 0.1416 0.2071 -- 85.0
X Ray Diffraction 1.9845 2.1088 2901 138 2763 0.1357 0.1787 -- 100.0
X Ray Diffraction 2.1088 2.2717 2899 149 2750 0.1359 0.1637 -- 100.0
X Ray Diffraction 2.2717 2.5003 2919 172 2747 0.1425 0.1805 -- 100.0
X Ray Diffraction 2.5003 2.862 2915 153 2762 0.1519 0.2066 -- 100.0
X Ray Diffraction 2.862 3.6055 2935 148 2787 0.1513 0.1953 -- 100.0
X Ray Diffraction 3.6055 43.9521 3001 141 2860 0.1654 0.2067 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model mixed
Mean Isotropic B 18.6
Anisotropic B[1][1] 3.5887
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.5887
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.1774
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.096
f_dihedral_angle_d 14.386
f_angle_d 1.235
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1796
Nucleic Acid Atoms 0
Heterogen Atoms 48
Solvent Atoms 130

Software

Computing
Computing Package Purpose
SBCCOLLECT, HKL3000 Data Collection
HKL-3000 Data Reduction (intensity integration)
HKL-3000 Data Reduction (data scaling)
HKL3000, Molrep Structure Solution
PHENIX (phenix.refine: 1.7.3_920) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_920) refinement
Molrep model building
HKL3000 model building
HKL3000 data collection
SBCCOLLECT data collection