X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.4
Temperature 298.0
Details 50 MM TRIS HCL, 15% PEG3350, 100MM CALCIUM DIACETATE, 2.5% GLYCEROL, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.27 α = 90
b = 102.18 β = 90
c = 52.73 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2009-10-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-F -- APS 21-ID-F

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
2.3 50 -- 0.059 -- -- -- -- 23031 -- 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)
2.3 2.38 -- 0.49 -- -- -- --

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 2.3 41.87 -- 1.36 -- 23031 2000 98.8 -- 0.218 0.213 0.269 --
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 2.2918 2.3491 -- 125 1312 0.3211 0.4305 -- 88.0
X Ray Diffraction 2.3491 2.4126 -- 137 1440 0.3116 0.4031 -- 97.0
X Ray Diffraction 2.4126 2.4836 -- 141 1484 0.2946 0.4002 -- 100.0
X Ray Diffraction 2.4836 2.5637 -- 143 1504 0.2891 0.3592 -- 100.0
X Ray Diffraction 2.5637 2.6554 -- 143 1500 0.2815 0.3767 -- 100.0
X Ray Diffraction 2.6554 2.7617 -- 143 1516 0.2658 0.3209 -- 100.0
X Ray Diffraction 2.7617 2.8873 -- 141 1481 0.2573 0.3147 -- 100.0
X Ray Diffraction 2.8873 3.0395 -- 144 1515 0.2548 0.3486 -- 100.0
X Ray Diffraction 3.0395 3.2299 -- 143 1508 0.2465 0.3025 -- 100.0
X Ray Diffraction 3.2299 3.4791 -- 146 1522 0.2172 0.2844 -- 100.0
X Ray Diffraction 3.4791 3.829 -- 145 1525 0.212 0.261 -- 100.0
X Ray Diffraction 3.829 4.3826 -- 147 1545 0.1745 0.2122 -- 100.0
X Ray Diffraction 4.3826 5.5196 -- 147 1552 0.1718 0.2222 -- 100.0
X Ray Diffraction 5.5196 41.8773 -- 155 1627 0.1869 0.2327 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 53.8
Anisotropic B[1][1] 2.5845
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.6585
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.926
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.2
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2744
Nucleic Acid Atoms 575
Heterogen Atoms 35
Solvent Atoms 84

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
CNS Structure Solution
PHENIX (PHENIX.REFINE: 1.7.2_869) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
phenix refinement