X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 295.0
Details phosphate, pH 7.0, VAPOR DIFFUSION, SITTING DROP at 295K, temperature 295.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.41 α = 90
b = 69.77 β = 92.22
c = 73.17 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS II -- 2001-07-02
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 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
1.95 30 90.4 0.056 -- -- 4.5 52603 47553 0.0 0.0 9.2
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)
1.95 2.02 50.8 0.25 -- 3.4 2.0 2650

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 1.95 30.0 0.0 0.0 52540 47442 4782 90.3 -- -- 0.171 0.216 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 1.95 2.07 4985 512 -- 0.246 0.2818 -- --
X Ray Diffraction 2.07 2.23 7686 774 -- 0.2061 0.255 -- --
X Ray Diffraction 2.23 2.46 8544 829 -- 0.1911 0.2618 -- --
X Ray Diffraction 2.46 2.81 8656 878 -- 0.1921 0.2491 -- --
X Ray Diffraction 2.81 3.54 8707 908 -- 0.1856 0.2346 -- --
X Ray Diffraction 3.54 30.0 8864 881 -- 0.1587 0.1847 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 23.4
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 0.85
c_dihedral_angle_d 23.9
c_angle_deg 1.5
c_bond_d 0.006
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.21
Luzzati Sigma A (Observed) 0.19
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.26
Luzzati Sigma A (R-Free Set) 0.24
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6012
Nucleic Acid Atoms 0
Heterogen Atoms 124
Solvent Atoms 730

Software

Computing
Computing Package Purpose
R-AXIS, DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
CNS version: 1.0 refinement
AMoRE model building