X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 2.5
Temperature 293.0
Details ammonium sulphate, glycin-HCL, galactose, dioxan, pH 2.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.83 α = 90
b = 106.83 β = 90
c = 310.95 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2000-04-18
Diffraction Radiation
Monochromator Protocol
Germanium 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.9073 EMBL/DESY, Hamburg X11

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
2.3 25 96.5 0.048 0.055 -- 11.0 46946 46562 1.0 3.0 40.7
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)
2.3 25.0 96.3 0.423 0.393 2.58 4.4 2191

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 2.3 10.0 -- 0.0 46667 45303 2388 99.8 0.24 0.28 0.209 0.246 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 2.3 2.38 4332 201 -- 0.3506 0.3797 0.18 89.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model anisotropic
RMS Deviations
Key Refinement Restraint Deviation
c_dihedral_angle_d 25.052
c_mcbond_it 0.008
c_improper_angle_d 0.86977
c_angle_deg 1.569
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2896
Luzzati Sigma A (Observed) 0.298
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.3478
Luzzati Sigma A (R-Free Set) 0.3461
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3918
Nucleic Acid Atoms 0
Heterogen Atoms 226
Solvent Atoms 361

Software

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