X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6
Details 10% PEGMME 5000, 10% DMSO, 6% MPD, 0.1 M MES, PH 6.0, 5MM SPERMINE HCL, 5MM (PRO-PRO-GLY)3

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 72.28 α = 90
b = 100.93 β = 90
c = 68.45 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2010-11-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I911-3 1.0, 1.9 MAX II I911-3

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
1.9 40 99.9 0.09 -- -- 19.5 -- 40153 -- 2.0 34.76
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)
1.9 1.95 99.8 0.58 -- 2.4 4.7 --

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 1.9 58.765 -- 1.99 -- 40148 1997 99.89 -- 0.1762 0.1738 0.2225 --
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 1.9 1.9475 -- 146 2682 0.245 0.2804 -- 100.0
X Ray Diffraction 1.9475 2.0002 -- 132 2684 0.2085 0.2867 -- 100.0
X Ray Diffraction 2.0002 2.059 -- 141 2687 0.1883 0.274 -- 100.0
X Ray Diffraction 2.059 2.1255 -- 141 2710 0.1782 0.2573 -- 100.0
X Ray Diffraction 2.1255 2.2015 -- 141 2675 0.1676 0.189 -- 100.0
X Ray Diffraction 2.2015 2.2896 -- 140 2678 0.1765 0.217 -- 100.0
X Ray Diffraction 2.2896 2.3938 -- 143 2715 0.1654 0.1752 -- 100.0
X Ray Diffraction 2.3938 2.52 -- 141 2683 0.1647 0.2151 -- 100.0
X Ray Diffraction 2.52 2.6779 -- 142 2731 0.1666 0.2357 -- 100.0
X Ray Diffraction 2.6779 2.8847 -- 144 2723 0.1708 0.2453 -- 100.0
X Ray Diffraction 2.8847 3.1749 -- 142 2718 0.1816 0.2416 -- 100.0
X Ray Diffraction 3.1749 3.6343 -- 144 2777 0.1682 0.2231 -- 100.0
X Ray Diffraction 3.6343 4.5786 -- 146 2781 0.1562 0.1946 -- 100.0
X Ray Diffraction 4.5786 58.7932 -- 154 2907 0.1816 0.2204 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.2
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.007
f_plane_restr 0.004
f_angle_d 0.931
f_dihedral_angle_d 13.47
f_chiral_restr 0.061
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3892
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 281

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction
XDS data scaling
PHASER phasing