X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details PEG3000, sodium chloride, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.9 α = 90
b = 58.9 β = 90
c = 118.1 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD OXFORD PX210 -- 2001-03-14
Diffraction Radiation
Monochromator Protocol
Monochromator + Mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 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
2.1 31 99.8 0.081 0.077 -- 9.7 14407 14407 0.0 0.0 41.4
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)
2.1 2.21 99.8 0.262 0.243 2.9 7.1 2048

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 2.1 10.0 -- 2.0 14407 13999 1420 98.2 -- -- 0.196 0.23 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 2.1 2.17 1351 138 1213 0.243 0.265 -- 96.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 35.7
Anisotropic B[1][1] -3.542
Anisotropic B[1][2] -2.812
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.542
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 7.084
RMS Deviations
Key Refinement Restraint Deviation
c_mcangle_it 2.732
c_scbond_it 2.948
c_improper_angle_d 0.767
c_scangle_it 4.292
c_dihedral_angle_d 19.56
c_mcbond_it 1.757
c_angle_deg 1.03
c_bond_d 0.0049
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.26
Luzzati Sigma A (Observed) 0.18
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.3
Luzzati Sigma A (R-Free Set) 0.17
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1318
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 131

Software

Software
Software Name Purpose
AMoRE phasing
CNS refinement
MOSFLM data reduction
CCP4 data scaling version: (SCALA)