X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 298.0
Details 40% PEG 400, 0.1 M Tris/HCl, 0.2 M Sodium citrate, 10 mM betamercaptoethanol, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.92 α = 90
b = 68.15 β = 90
c = 83.34 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 280
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS II -- 1999-09-15
Diffraction Radiation
Monochromator Protocol
-- 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
2 30 100.0 -- 0.08 -- 4.44 -- 37198 0.0 0.0 19.03
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)
2.0 2.07 100.0 0.32 0.32 1.98 1.63 982

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 2.0 30.0 0.0 0.0 -- 11995 650 89.5 0.1903 0.1903 0.1891 0.2265 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 2.0 2.05 738 38 -- 0.2876 0.3816 -- --
X Ray Diffraction 2.05 2.11 854 56 -- 0.2571 0.2789 -- --
X Ray Diffraction 2.11 2.18 904 39 -- 0.2436 0.2717 -- --
X Ray Diffraction 2.18 2.26 930 38 -- 0.225 0.3216 -- --
X Ray Diffraction 2.26 2.35 944 43 -- 0.2178 0.2511 -- --
X Ray Diffraction 2.35 2.46 916 54 -- 0.2197 0.2873 -- --
X Ray Diffraction 2.46 2.59 921 59 -- 0.1981 0.1911 -- --
X Ray Diffraction 2.75 2.96 946 43 -- 0.1932 0.2438 -- --
X Ray Diffraction 3.26 3.73 967 49 -- 0.158 0.201 -- --
X Ray Diffraction 3.73 4.7 966 54 -- 0.1572 0.192 -- --
X Ray Diffraction 4.7 30.0 1007 57 -- 0.1658 0.1822 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Anisotropic
Mean Isotropic B 18.4695
Anisotropic B[1][1] -3.117
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.986
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.131
RMS Deviations
Key Refinement Restraint Deviation
c_angle_deg 1.393
c_bond_d 0.013
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1423
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 72

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
EPMR Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
CNS version: 1.0 refinement
EPMR model building