X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microdialysis
pH 6.1
Temperature 283.0
Details PEG 400, MES, EGTA, glycerol, magnesium chloride, pH 6.1, MICRODIALYSIS, temperature 283K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.74 α = 90
b = 71.74 β = 90
c = 590.3 γ = 90
Symmetry
Space Group P 41

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MACSCIENCE -- 2000-12-10
Diffraction Radiation
Monochromator Protocol
KARKPATRIC-BOETZE TYPE RH-COATED DOUBLE MIRROR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.900 SPring-8 BL44XU

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
3.1 20 97.9 0.092 -- -- 7.2 52421 51314 0.0 0.0 63.8
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)
3.1 3.18 97.4 0.437 -- 3.0 4.1 3985

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 3.1 15.0 -- 3.0 53132 50822 2562 95.7 0.241 0.237 0.237 0.268 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 3.1 3.29 7518 378 7140 0.369 0.409 0.021 85.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model GROUP
Mean Isotropic B 83.0
Anisotropic B[1][1] 5.24
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 5.24
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -10.48
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 0.89
c_dihedral_angle_d 22.2
c_angle_deg 1.3
c_bond_d 0.009
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.49
Luzzati Sigma A (R-Free Set) 0.57
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15342
Nucleic Acid Atoms 0
Heterogen Atoms 92
Solvent Atoms 0

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
X-PLOR model building
CNS refinement version: 1.1
X-PLOR phasing