X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 298.0
Details 2 M mono-Ammonium dihydrogen Phosphate, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 82.04 α = 90
b = 82.04 β = 90
c = 176.35 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 SBC-2 -- 2001-10-01
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97916, 0.97938 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
2.8 50 99.9 0.106 -- -- 3.7 32704 32696 -- -3.0 35.5
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)
2.8 2.9 99.3 0.377 -- 2.2 3.0 3245

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 2.8 39.96 -- 0.0 32704 30941 1576 94.6 -- 0.229 0.229 0.274 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 2.8 2.98 -- 243 4503 0.33 0.375 0.024 87.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 37.7
Anisotropic B[1][1] 6.38
Anisotropic B[1][2] 8.12
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 6.38
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -12.76
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 5.0
c_scbond_it 3.3
c_mcangle_it 3.84
c_mcbond_it 2.39
c_improper_angle_d 1.32
c_bond_d 0.01
c_angle_deg 1.8
c_dihedral_angle_d 25.3
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.36
Luzzati Sigma A (Observed) 0.47
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.47
Luzzati Sigma A (R-Free Set) 0.55
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3252
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 0

Software

Computing
Computing Package Purpose
DTCOLLECT Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
SHAKE-N-BAKE, SOLVE, RESOLVE, O Structure Solution
CNS 1.1 Structure Refinement
Software
Software Name Purpose
CNS version: 1.1 refinement
O model building
RESOLVE model building
SOLVE model building
SnB model building
hkl2000 data reduction
dtcollect data collection