X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.8
Temperature 298.0
Details 20% MPD, 0.1M MES, 30mM MgAc2, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 135.49 α = 90
b = 301.06 β = 112.78
c = 144.45 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm Double focussing X-ray 2004-12-19
Diffraction Radiation
Monochromator Protocol
double-crystal Si(1 1 1) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 1.05 MPG/DESY, HAMBURG BW6

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 20 99.2 0.101 -- -- -- -- 209872 2.0 2.0 49.2
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 3.04 99.2 0.436 -- -- -- --

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
FOURIER SYNTHESIS 3.0 15.0 2.0 0.0 -- 208857 10390 99.1 0.219 0.218 0.218 0.245 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 3.19 33116 1771 33116 0.34 0.357 0.008 99.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 49.2
Anisotropic B[1][1] 12.57
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.06
Anisotropic B[2][2] -29.93
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 17.36
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 0.78
c_bond_d 0.008
c_dihedral_angle_d 23.3
c_scangle_it 3.2
c_mcbond_it 1.86
c_angle_deg 1.4
c_scbond_it 2.45
c_mcangle_it 2.42
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.38
Luzzati Sigma A (Observed) 0.58
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.42
Luzzati Sigma A (R-Free Set) 0.64
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 49546
Nucleic Acid Atoms 0
Heterogen Atoms 86
Solvent Atoms 858

Software

Software
Software Name Purpose
CNS refinement version: 1.1
HKL-2000 data collection
DENZO data reduction
SCALEPACK data scaling
CNS phasing