X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details 0.3 M sodium acetate, 0.1 M Tris/HCl, 10 mM CaCl2, 20% (w/v) polyethyleneglycol 4000, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 94.24 α = 90
b = 78.61 β = 96.62
c = 98.08 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 0.9184 BESSY 14.1

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
2.84 49.6 99.6 0.113 -- -- -- -- 33639 -- -3.0 49.68
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)
2.84 3.02 98.8 0.692 -- 1.96 -- --

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 2.84 49.596 -- 2.0 -- 33622 1681 99.59 -- 0.1948 0.1917 0.252 --
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 2.84 2.9272 -- 137 2620 0.3006 0.37 -- 98.0
X Ray Diffraction 2.9272 3.0217 -- 138 2608 0.2604 0.3288 -- 100.0
X Ray Diffraction 3.0217 3.1297 -- 141 2672 0.2295 0.2614 -- 100.0
X Ray Diffraction 3.1297 3.255 -- 138 2640 0.2248 0.3065 -- 100.0
X Ray Diffraction 3.255 3.4031 -- 141 2674 0.2197 0.2936 -- 100.0
X Ray Diffraction 3.4031 3.5825 -- 139 2653 0.2053 0.3074 -- 100.0
X Ray Diffraction 3.5825 3.8068 -- 140 2651 0.1885 0.2601 -- 100.0
X Ray Diffraction 3.8068 4.1006 -- 140 2674 0.1788 0.2164 -- 100.0
X Ray Diffraction 4.1006 4.5131 -- 141 2665 0.1592 0.217 -- 100.0
X Ray Diffraction 4.5131 5.1655 -- 141 2678 0.1653 0.2211 -- 100.0
X Ray Diffraction 5.1655 6.5057 -- 142 2692 0.1841 0.2443 -- 100.0
X Ray Diffraction 6.5057 49.6037 -- 143 2714 0.167 0.2109 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.9233
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.01
f_angle_d 1.23
f_plane_restr 0.005
f_chiral_restr 0.079
f_dihedral_angle_d 14.844
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10536
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 33

Software

Software
Software Name Purpose
XSCALE data scaling
PHASER phasing
PHENIX refinement version: 1.8_1069
PDB_EXTRACT data extraction version: 3.11