X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.1 M SODIUM CACODYLATE TRIHYDRATE PH 6.5, 0.2 M MAGNESIUM ACETATE TETRAHYDRATE, 10% W/V PEG 8000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 72.21 α = 90
b = 62.49 β = 98.39
c = 145.53 γ = 90
Symmetry
Space Group I 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-2 -- ESRF ID23-2

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
4 47 97.5 0.28 -- -- 3.0 -- 5430 -- 2.0 87.28
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)
4.0 4.21 93.8 0.76 -- 1.5 2.9 --

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 3.998 47.031 -- 1.38 -- 5413 246 96.89 -- 0.326 0.3251 0.347 --
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 3.9976 5.0356 -- 133 2538 0.3551 0.3795 -- 97.0
X Ray Diffraction 5.0356 47.0347 -- 113 2629 0.3038 0.3191 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 70.0
Anisotropic B[1][1] 19.6992
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -63.1796
Anisotropic B[2][2] 30.6727
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 52.4164
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.04
f_dihedral_angle_d 11.907
f_angle_d 0.694
f_bond_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3416
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHASER model building