X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 296.0
Details 0.17 M (NH4)2SO4, 0.085 M cacodylate pH 6.5, 25.5% (w/v) polyethylene glycol (PEG) 8000, and 15% (v/v) glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 152.1 α = 90
b = 57.46 β = 112.78
c = 60.04 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 MAR scanner 300 mm plate -- 2011-11-27
Diffraction Radiation
Monochromator Protocol
Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-D 1.03319 APS 23-ID-D

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
1.7 41.5 95.8 -- -- -- -- 52788 50571 0.0 0.0 --
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)
1.7 1.73 81.8 -- -- -- -- --

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 1.7 41.5 -- 1.36 52817 50557 2567 95.72 -- 0.1877 0.1865 0.2091 random
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 1.7 1.7315 -- 142 2227 0.2429 0.2659 -- 82.0
X Ray Diffraction 1.7315 1.7668 -- 131 2427 0.2537 0.2756 -- 87.0
X Ray Diffraction 1.7668 1.8052 -- 128 2564 0.2392 0.2748 -- 92.0
X Ray Diffraction 1.8052 1.8472 -- 147 2645 0.2409 0.2743 -- 96.0
X Ray Diffraction 1.8472 1.8934 -- 130 2648 0.2202 0.2654 -- 96.0
X Ray Diffraction 1.8934 1.9446 -- 141 2680 0.2242 0.2817 -- 97.0
X Ray Diffraction 1.9446 2.0018 -- 137 2676 0.2189 0.2649 -- 97.0
X Ray Diffraction 2.0018 2.0664 -- 165 2667 0.2078 0.2343 -- 97.0
X Ray Diffraction 2.0664 2.1403 -- 148 2729 0.1988 0.2369 -- 97.0
X Ray Diffraction 2.1403 2.226 -- 152 2658 0.2072 0.2138 -- 97.0
X Ray Diffraction 2.226 2.3273 -- 149 2706 0.2019 0.2916 -- 98.0
X Ray Diffraction 2.3273 2.4499 -- 126 2745 0.2088 0.246 -- 98.0
X Ray Diffraction 2.4499 2.6034 -- 154 2731 0.1965 0.2544 -- 98.0
X Ray Diffraction 2.6034 2.8044 -- 142 2747 0.1927 0.1886 -- 98.0
X Ray Diffraction 2.8044 3.0865 -- 152 2726 0.1778 0.1842 -- 98.0
X Ray Diffraction 3.0865 3.533 -- 146 2783 0.1649 0.1765 -- 99.0
X Ray Diffraction 3.533 4.4503 -- 148 2775 0.1484 0.1522 -- 99.0
X Ray Diffraction 4.4503 41.5247 -- 129 2856 0.168 0.181 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.1969
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -4.3672
Anisotropic B[2][2] -4.9677
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.7708
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.073
f_dihedral_angle_d 12.492
f_angle_d 1.114
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3296
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 532

Software

Computing
Computing Package Purpose
Blu-Ice Data Collection
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MOLREP Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
MOLREP model building
Blu-Ice data collection