X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details 50mM Tris pH 7.0, 35% PEG 400, 250mM LiSO4, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 84.49 α = 90
b = 84.49 β = 90
c = 84.49 γ = 90
Symmetry
Space Group I 21 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm -- 2006-10-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.8162 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
1.5 19.91 100.0 0.047 0.047 -- 18.89 16225 16225 0.0 -3.0 14.55
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)
1.5 1.55 100.0 0.176 0.176 12.1 18.9 1589

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 1.5 19.914 0.0 1.35 16224 16224 815 100.0 -- 0.1739 0.1724 0.2022 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 1.5001 1.5941 -- 142 2541 0.179 0.2383 -- 100.0
X Ray Diffraction 1.5941 1.7171 -- 124 2537 0.1674 0.2141 -- 100.0
X Ray Diffraction 1.7171 1.8898 -- 138 2540 0.1651 0.1898 -- 100.0
X Ray Diffraction 1.8898 2.1629 -- 133 2581 0.1567 0.1862 -- 100.0
X Ray Diffraction 2.1629 2.7239 -- 136 2561 0.1591 0.1937 -- 100.0
X Ray Diffraction 2.7239 19.9155 -- 142 2649 0.1829 0.2054 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model individual atomic B factors
Mean Isotropic B 17.692
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 15.107
f_bond_d 0.009
f_chiral_restr 0.1
f_angle_d 1.33
f_plane_restr 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 774
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 72

Software

Software
Software Name Purpose
MAR345dtb data collection
PHASER phasing
PHENIX refinement version: (phenix.refine)
DENZO data reduction
SCALEPACK data scaling