X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.2
Details 8% PEG-1000, 100 MM NAK PHOSPHATE, PH 6.2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.64 α = 90
b = 78.71 β = 117.91
c = 39.59 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- 2008-10-04
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
1.4 31.97 89.3 0.04 -- -- 2.8 -- 35882 -- 2.0 22.1
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)
1.4 1.48 91.7 0.46 -- 2.27 2.6 --

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 1.4 31.969 -- 2.0 -- 35876 1863 89.56 -- 0.1913 0.1896 0.2231 --
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 1.4001 1.438 -- 137 2648 0.2737 0.2968 -- 91.0
X Ray Diffraction 1.438 1.4803 -- 139 2700 0.2569 0.2974 -- 92.0
X Ray Diffraction 1.4803 1.5281 -- 155 2681 0.2389 0.2536 -- 92.0
X Ray Diffraction 1.5281 1.5827 -- 164 2672 0.2309 0.2814 -- 92.0
X Ray Diffraction 1.5827 1.646 -- 151 2671 0.2241 0.2546 -- 92.0
X Ray Diffraction 1.646 1.721 -- 138 2679 0.2141 0.2299 -- 92.0
X Ray Diffraction 1.721 1.8117 -- 142 2675 0.2007 0.2718 -- 91.0
X Ray Diffraction 1.8117 1.9252 -- 150 2614 0.19 0.2412 -- 91.0
X Ray Diffraction 1.9252 2.0738 -- 144 2625 0.1834 0.1986 -- 89.0
X Ray Diffraction 2.0738 2.2824 -- 142 2588 0.1813 0.2272 -- 89.0
X Ray Diffraction 2.2824 2.6126 -- 137 2540 0.1816 0.2223 -- 87.0
X Ray Diffraction 2.6126 3.291 -- 138 2539 0.1753 0.1903 -- 86.0
X Ray Diffraction 3.291 31.9769 -- 126 2381 0.1649 0.194 -- 80.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.6405
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.9553
Anisotropic B[2][2] 0.0176
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.6581
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.149
f_angle_d 1.508
f_bond_d 0.006
f_plane_restr 0.004
f_dihedral_angle_d 17.313
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1714
Nucleic Acid Atoms 0
Heterogen Atoms 18
Solvent Atoms 298

Software

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