X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 16 % PEG 1500, 0.1M CaCl2, 0.1M imidazole, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.86 α = 90
b = 127.51 β = 90
c = 193.04 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2009-06-04
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1 APS 22-ID

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
2.8 50 93.8 0.079 0.068 -- 4.2 21323 20001 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)
2.8 2.9 82.4 0.294 -- -- 2.5 --

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 2.8 45.289 -- 0.0 21060 19639 936 93.25 -- 0.2259 0.223 0.2819 --
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 2.8 2.9476 -- 110 2196 0.3266 0.4035 -- 78.0
X Ray Diffraction 2.9476 3.1323 -- 131 2580 0.2757 0.3346 -- 92.0
X Ray Diffraction 3.1323 3.374 -- 136 2705 0.2428 0.3167 -- 96.0
X Ray Diffraction 3.374 3.7134 -- 128 2802 0.2154 0.2898 -- 98.0
X Ray Diffraction 3.7134 4.2504 -- 136 2835 0.1954 0.2478 -- 98.0
X Ray Diffraction 4.2504 5.3537 -- 149 2786 0.1783 0.2217 -- 98.0
X Ray Diffraction 5.3537 45.2952 -- 146 2799 0.2318 0.2997 -- 93.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -18.8646
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.7417
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -10.6074
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_chiral_restr 0.04
f_dihedral_angle_d 11.02
f_angle_d 0.607
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5428
Nucleic Acid Atoms 0
Heterogen Atoms 196
Solvent Atoms 89

Software

Computing
Computing Package Purpose
HKL Data Reduction (data scaling)
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
phenix refinement
HKL data reduction