X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.5
Details 20C, VAPOR DIFFUSION, 3 UL PROTEIN (5 MG/ML IN 50 MM TRIS/CL, 100 MM NACL, PH 8.0) + 3 UL RESERVOIR SOLUTION (100 MM SODIUM CITRATE/HCL, 1.4-1.7 M LITHIUM CHLORIDE, PH 5.0-6.0) EQUILIBRATED AGAINST 1 ML OF RESERVOIR SOLUTION.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 83.53 α = 90
b = 83.53 β = 90
c = 132.46 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 APS1 -- 1999-02-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID -- APS 19-ID

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
1.85 72.34 98.7 0.044 -- -- 6.5 -- 45847 -- -3.0 22.2
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)
1.85 1.92 97.9 0.541 -- 3.1 5.7 --

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
MAD 1.85 39.83 -- 0.0 -- 43980 2189 94.8 -- 0.224 0.224 0.245 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 1.85 1.97 -- 317 6317 0.273 0.305 0.017 87.4
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 39.6
Anisotropic B[1][1] 1.94
Anisotropic B[1][2] 0.2
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.94
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.87
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 3.24
c_scbond_it 2.13
c_mcangle_it 2.98
c_mcbond_it 1.76
c_improper_angle_d 0.62
c_bond_d 0.006
c_angle_deg 1.3
c_dihedral_angle_d 26.7
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.24
Luzzati Sigma A (Observed) 0.16
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.28
Luzzati Sigma A (R-Free Set) 0.15
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3474
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 215

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
CNS 1.0 Structure Refinement
Software
Software Name Purpose
CNS version: 1.0 refinement