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_angle_deg 1.569
c_improper_angle_d 0.86977
c_dihedral_angle_d 25.052
c_mcbond_it 0.008
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

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
CNS Structure Refinement
Software
Software Name Purpose
CNS refinement
AMoRE model building
SCALEPACK data reduction
DENZO data collection