X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details salts, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 125.84 α = 90
b = 125.84 β = 90
c = 85.98 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MACSCIENCE Mar CCD 165 mm 2002-08-15
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 1.0 APS 19-BM

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
2.5 50 99.2 0.082 0.082 -- 10.0 27314 27095 0.0 0.0 62.5
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)
2.5 2.59 2727.0 0.718 0.718 2.5 10.0 2727

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
Amore 2.5 8.0 2.0 2.0 27314 21317 1713 81.8 -- 0.267 0.237 0.267 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 2.5 2.65 -- 168 1958 0.292 0.322 0.025 49.5
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 67.2
Anisotropic B[1][1] -8.45
Anisotropic B[1][2] 4.52
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -8.45
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 16.9
RMS Deviations
Key Refinement Restraint Deviation
c_scbond_it 5.41
c_improper_angle_d 0.8
c_mcbond_it 2.23
c_angle_deg 1.5
c_dihedral_angle_d 26.3
c_bond_d 0.007
c_mcangle_it 3.93
c_scangle_it 6.62
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.42
Luzzati Sigma A (R-Free Set) 0.4
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4476
Nucleic Acid Atoms 0
Heterogen Atoms 101
Solvent Atoms 205

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
CNX 2000 Structure Refinement
Software
Software Name Purpose
CNX version: 2000 refinement
HKL-2000 data collection
SCALEPACK data reduction
AMoRE model building