X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 277.0
Details 2-Methyl-2,4-Pentanediol, potassium phosphate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 107.01 α = 90
b = 76.09 β = 90
c = 51.12 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV Mirrors 2000-11-03
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU 1.5418 -- --

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
1.7 50 -- 0.046 -- -- 9.142 -- 46346 2.0 2.0 --
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)
1.7 1.73 90.1 0.207 0.189 4.9756 4.41 2045

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 1.7 50.0 2.0 2.0 45673 43404 2269 97.9 -- -- 0.1859 0.2072 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 1.7 1.76 3832 184 -- 0.3505 0.3202 -- --
X Ray Diffraction 1.76 1.83 4244 204 -- 0.2653 0.2686 -- --
X Ray Diffraction 1.83 1.91 4283 211 -- 0.2022 0.2314 -- --
X Ray Diffraction 1.91 2.02 4354 211 -- 0.1751 0.1876 -- --
X Ray Diffraction 2.02 2.14 4352 252 -- 0.1707 0.2071 -- --
X Ray Diffraction 2.14 2.31 4397 237 -- 0.1699 0.1949 -- --
X Ray Diffraction 2.31 2.54 4395 242 -- 0.1808 0.2093 -- --
X Ray Diffraction 2.54 2.91 4424 232 -- 0.1701 0.2179 -- --
X Ray Diffraction 2.91 3.66 4502 240 -- 0.1788 0.2018 -- --
X Ray Diffraction 3.66 50.0 4621 256 -- 0.1811 0.1888 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
RMS Deviations
Key Refinement Restraint Deviation
o_bond_d 0.0076
c_angle_d 1.2576
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.19
Luzzati Sigma A (Observed) 0.02
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.21
Luzzati Sigma A (R-Free Set) -0.03
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2374
Nucleic Acid Atoms 0
Heterogen Atoms 44
Solvent Atoms 620

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
CNS refinement
CNS phasing