X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch
pH 5.8
Temperature 295.0
Details Sodium Cacodylate, PEG 4000, pH 5.8, microbatch, temperature 295.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 91.76 α = 90
b = 63.74 β = 103.14
c = 131.98 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS V -- 2005-10-30
IMAGE PLATE RIGAKU RAXIS Graphite 2005-05-21
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL26B1 0.919, 0.9203, 0.9252 SPring-8 BL26B1
SYNCHROTRON SPRING-8 BEAMLINE BL26B1 1.0 SPring-8 BL26B1

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 50 97.0 0.089 -- -- 3.8 105186 101628 0.0 0.0 18.3
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 98.9 -- -- -- -- --

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
MAD 1.95 34.69 -- 0.0 105186 101628 5136 97.0 -- 0.235 0.235 0.265 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 -- 798 15214 0.292 0.322 0.011 94.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 32.7
Anisotropic B[1][1] 4.54
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.42
Anisotropic B[2][2] 5.29
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -9.83
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.006
c_dihedral_angle_d 22.0
c_mcbond_it 1.35
c_mcangle_it 2.01
c_angle_deg 1.3
c_scbond_it 2.11
c_scangle_it 3.09
c_improper_angle_d 0.76
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.26
Luzzati Sigma A (Observed) 0.23
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.3
Luzzati Sigma A (R-Free Set) 0.26
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10732
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 1030

Software

Software
Software Name Purpose
CNS refinement version: 1.1
HKL-2000 data reduction
SCALEPACK data scaling
SOLVE phasing