X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 1.7M SODIUM MALONATE, PH 7.5 AND 1 MM MGCL2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 50.82 α = 90
b = 68.53 β = 112.35
c = 58.9 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 -- SSRL BL11-1

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
1.55 20.39 97.6 0.03 -- -- 3.0 -- 26462 -- 0.0 24.76
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)
1.55 1.63 99.6 0.63 -- -- 3.0 --

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 1.55 20.39 -- 1.34 -- 26446 2002 97.48 -- 0.1889 0.1867 0.2157 --
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 1.55 1.5888 -- 133 1797 0.3177 0.3515 -- 100.0
X Ray Diffraction 1.5888 1.6317 -- 150 1775 0.2822 0.2974 -- 99.0
X Ray Diffraction 1.6317 1.6797 -- 149 1753 0.2549 0.2913 -- 99.0
X Ray Diffraction 1.6797 1.7339 -- 148 1780 0.2408 0.283 -- 100.0
X Ray Diffraction 1.7339 1.7958 -- 132 1774 0.2235 0.2737 -- 100.0
X Ray Diffraction 1.7958 1.8677 -- 162 1775 0.2274 0.2735 -- 100.0
X Ray Diffraction 1.8677 1.9526 -- 136 1797 0.2303 0.2484 -- 100.0
X Ray Diffraction 1.9526 2.0555 -- 149 1752 0.2194 0.2543 -- 100.0
X Ray Diffraction 2.0555 2.1841 -- 147 1774 0.2181 0.2458 -- 99.0
X Ray Diffraction 2.1841 2.3525 -- 146 1780 0.2107 0.2485 -- 99.0
X Ray Diffraction 2.3525 2.5888 -- 149 1751 0.2104 0.2446 -- 98.0
X Ray Diffraction 2.5888 2.9625 -- 146 1759 0.203 0.2173 -- 98.0
X Ray Diffraction 2.9625 3.7287 -- 143 1700 0.1436 0.1814 -- 95.0
X Ray Diffraction 3.7287 20.3919 -- 112 1477 0.1461 0.1605 -- 80.0
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.004
f_dihedral_angle_d 14.414
f_angle_d 0.945
f_chiral_restr 0.041
f_plane_restr 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 1344
Heterogen Atoms 16
Solvent Atoms 289

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
iMOSFLM data reduction
PHENIX phasing