X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details POLYETHYLENEIMINE TRIS-HCL ISOPROPANOL, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 180.8 α = 90
b = 134.2 β = 94.3
c = 94.2 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 1) Cylindrical 1m long collimating mirror (Rh-coated Si) before monochromator 2) Toroidal focusing mirror 1.2m long (Rh-coated zerodur) after the monochromator 1999-12-23
Diffraction Radiation
Monochromator Protocol
Double-Crystal Si 111 crystals SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 1.033 SSRL BL9-2

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
3 30 98.5 0.079 -- -- 2.5 46268 44525 -- -3.0 --
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)
3.0 3.11 98.6 0.368 -- -- -- --

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 3.0 30.0 -- 0.0 44525 42434 3449 94.5 0.2 0.2 0.196 0.242 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 3.0 3.14 4951 375 4576 0.318 0.315 0.016 87.7
X Ray Diffraction 3.14 3.3 5069 396 4673 0.271 0.27 0.014 91.2
X Ray Diffraction 3.3 3.51 5209 427 4782 0.264 0.265 0.013 92.8
X Ray Diffraction 3.51 3.78 5333 465 4868 0.225 0.226 0.01 95.5
X Ray Diffraction 3.78 4.16 5457 430 5027 0.177 0.179 0.009 97.6
X Ray Diffraction 4.16 4.76 5478 435 5043 0.146 0.148 0.007 97.5
X Ray Diffraction 4.76 5.99 5504 473 5031 0.179 0.177 0.008 97.9
X Ray Diffraction 5.99 29.71 5433 448 4985 0.149 0.148 0.007 95.2
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Grouped isotropic
Mean Isotropic B 59.09
Anisotropic B[1][1] 6.79
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -5.21
Anisotropic B[2][2] 0.65
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.44
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_impr_deg 0.85
x_torsion_deg 18.4
x_angle_deg 1.2
x_bond_d 0.007
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.33
Luzzati Sigma A (Observed) 0.51
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.42
Luzzati Sigma A (R-Free Set) 0.63
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8910
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 20

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
Crystallography & NMR System version: 1.0 refinement