X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Temperature 293.0
Details PEG 4K, Na Acetate, pH 8.5, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 55.64 α = 76.8
b = 57.03 β = 76.93
c = 96.88 γ = 86.28
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV OSMIC MIRRORS 1999-10-01
Diffraction Radiation
Monochromator Protocol
MIRROR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 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
2.3 35.5 96.5 -- 0.098 -- 2.7 -- 47881 -- -3.0 21.2
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)
2.3 2.38 94.3 -- 0.221 1.7 -- --

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
FOURIER SYNTHESIS 2.3 35.55 -- 2.0 -- 37344 3825 74.4 0.232 0.2071 0.2 0.287 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 2.3 2.44 -- 334 3052 0.278 0.341 0.019 40.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 32.9
Anisotropic B[1][1] 5.29
Anisotropic B[1][2] -1.53
Anisotropic B[1][3] 1.4
Anisotropic B[2][2] -1.41
Anisotropic B[2][3] 3.61
Anisotropic B[3][3] -3.88
RMS Deviations
Key Refinement Restraint Deviation
c_mcbond_it 0.2
c_scangle_it 0.26
c_mcangle_it 0.37
c_dihedral_angle_d 21.9
c_bond_d 0.009
c_angle_deg 1.7
c_scbond_it 0.15
c_improper_angle_d 0.83
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.29
Luzzati Sigma A (Observed) 0.35
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.41
Luzzati Sigma A (R-Free Set) 0.36
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8700
Nucleic Acid Atoms 0
Heterogen Atoms 304
Solvent Atoms 165

Software

Software
Software Name Purpose
CCP4 model building
CNS refinement version: 1.1
DENZO data reduction
SCALEPACK data scaling
CCP4 phasing