X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 289.0
Details 0.2M calcium acetate, 0.1M Tris-HCl, 20%(w/v) polyethylene glycol 3000, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.3 α = 90
b = 109.94 β = 120.03
c = 106.14 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2012-01-12
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 0.98 ALS 5.0.1

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
2.96 50 99.0 -- -- -- -- 22039 21825 2.0 2.0 57.95
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)
3.0 3.11 99.9 -- -- -- -- --

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 2.963 47.173 -- 1.36 22039 21825 1990 99.03 0.2219 0.2234 0.2203 0.2532 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 2.9633 3.0374 -- 137 1319 0.3445 0.3876 -- 94.0
X Ray Diffraction 3.0374 3.1195 -- 134 1445 0.2991 0.355 -- 100.0
X Ray Diffraction 3.1195 3.2113 -- 134 1412 0.2753 0.3732 -- 99.0
X Ray Diffraction 3.2113 3.3149 -- 150 1374 0.2723 0.313 -- 98.0
X Ray Diffraction 3.3149 3.4333 -- 149 1408 0.2522 0.3297 -- 99.0
X Ray Diffraction 3.4333 3.5708 -- 127 1414 0.2401 0.2762 -- 100.0
X Ray Diffraction 3.5708 3.7332 -- 146 1410 0.2302 0.2836 -- 99.0
X Ray Diffraction 3.7332 3.9299 -- 146 1442 0.2223 0.295 -- 100.0
X Ray Diffraction 3.9299 4.176 -- 139 1429 0.2137 0.2418 -- 100.0
X Ray Diffraction 4.176 4.4982 -- 142 1440 0.1782 0.2476 -- 100.0
X Ray Diffraction 4.4982 4.9505 -- 143 1416 0.1772 0.1962 -- 100.0
X Ray Diffraction 4.9505 5.6658 -- 154 1430 0.1951 0.2125 -- 100.0
X Ray Diffraction 5.6658 7.1343 -- 137 1455 0.214 0.2362 -- 100.0
X Ray Diffraction 7.1343 47.1794 -- 152 1441 0.2085 0.1924 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 77.3168
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 18.526
f_plane_restr 0.005
f_chiral_restr 0.088
f_angle_d 1.315
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6087
Nucleic Acid Atoms 1148
Heterogen Atoms 0
Solvent Atoms 0

Software

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