X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.4
Temperature 293.15
Details PEG 6000, ammonium sulfate, tris-HCl, benzamidine, calcium chloride, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.28 α = 90
b = 58.57 β = 90
c = 66.14 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 105
Diffraction Detector
Detector Diffraction Type Details Collection Date
ENRAF-NONIUS ENRAF-NONIUS -- 2000-06-09
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE ENRAF-NONIUS FR590 -- -- --

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
1.2 19.9 97.4 0.061 -- -- 10.5 64859 64859 0.0 0.0 11.6
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)
1.2 1.24 77.1 0.429 -- 1.5 2.1 6239

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 1.21 19.9 0.0 0.0 64546 64546 3273 99.4 0.161 0.161 0.16 0.178 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 1.21 1.25 6239 343 -- 0.253 0.276 -- 97.5
X Ray Diffraction 1.25 1.3 6364 333 -- 0.235 0.254 -- 99.1
X Ray Diffraction 1.3 1.36 6398 322 -- 0.213 0.202 -- 99.6
X Ray Diffraction 1.36 1.43 6406 339 -- 0.185 0.195 -- 99.7
X Ray Diffraction 1.43 1.52 6413 299 -- 0.161 0.171 -- 99.6
X Ray Diffraction 1.52 1.64 6441 351 -- 0.147 0.156 -- 99.5
X Ray Diffraction 1.64 1.81 6434 305 -- 0.141 0.161 -- 99.4
X Ray Diffraction 1.81 2.07 6497 323 -- 0.144 0.172 -- 99.8
X Ray Diffraction 2.07 2.61 6565 350 -- 0.14 0.164 -- 99.8
X Ray Diffraction 2.61 19.9 6789 308 -- 0.146 0.16 -- 99.7
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 9.5
Anisotropic B[1][1] -8.1
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.674
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.138
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.00839
c_mcangle_it 1.077
c_mcbond_it 0.753
c_dihedral_angle_deg 25.877
c_angle_deg 1.574
c_scbond_it 1.453
c_improper_angle_deg 1.023
c_scangle_it 1.908
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.12
Luzzati Sigma A (Observed) 0.13
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.13
Luzzati Sigma A (R-Free Set) 0.13
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1629
Nucleic Acid Atoms 0
Heterogen Atoms 45
Solvent Atoms 385

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing
CNS refinement version: 1.0