X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 293.0
Details 1.6 M SODIUM CITRATE/CITRIC ACID PH 6.5, SITTING DROP, 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 154.94 α = 90
b = 154.94 β = 90
c = 85.4 γ = 120
Symmetry
Space Group P 32 1 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M MIRRORS 2012-10-07
Diffraction Radiation
Monochromator Protocol
SI 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04-1 -- Diamond I04-1

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
3.3 44.73 99.2 0.22 -- -- 6.1 -- 17598 -- 2.0 71.57
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)
3.3 3.48 99.9 0.88 -- 1.9 5.8 --

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 3.3 44.727 -- 1.35 -- 17566 894 99.1 -- 0.1916 0.2023 0.2266 --
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 3.3001 3.5068 -- 162 2747 0.2813 0.3083 -- 100.0
X Ray Diffraction 3.5068 3.7774 -- 156 2790 0.2447 0.2708 -- 100.0
X Ray Diffraction 3.7774 4.1573 -- 154 2761 0.205 0.2684 -- 100.0
X Ray Diffraction 4.1573 4.7583 -- 154 2786 0.1589 0.1861 -- 99.0
X Ray Diffraction 4.7583 5.9927 -- 129 2736 0.1667 0.1854 -- 97.0
X Ray Diffraction 5.9927 44.7311 -- 139 2852 0.1643 0.1901 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 63.5
Anisotropic B[1][1] 8.25
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 8.25
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -16.5
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.975
f_dihedral_angle_d 15.024
f_bond_d 0.007
f_chiral_restr 0.032
f_plane_restr 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4697
Nucleic Acid Atoms 0
Heterogen Atoms 63
Solvent Atoms 0

Software

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