X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 277.15
Details 15% PEG 8000, 20mM sodium phosphate, 175mM sodium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.12 α = 90
b = 71.03 β = 100.4
c = 72.75 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 108
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD Collimating mirror 2009-06-23
Diffraction Radiation
Monochromator Protocol
Bartels Monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA 1.00 SLS X06DA

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 50 94.0 -- 0.034 -- 2.4 64957 64957 -- -- 11.81
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 1.42 92.2 -- 0.37 2.2 2.4 3195

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 24.74 -- 0.0 64188 61099 3089 88.55 0.1359 0.1359 0.1343 0.1647 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 1.4 1.45 -- 284 5088 0.2081 0.2453 -- 78.0
X Ray Diffraction 1.45 1.5081 -- 302 5322 0.1794 0.2289 -- 81.0
X Ray Diffraction 1.5081 1.5767 -- 308 5502 0.1438 0.1928 -- 85.0
X Ray Diffraction 1.5767 1.6598 -- 293 5814 0.1255 0.1777 -- 88.0
X Ray Diffraction 1.6598 1.7638 -- 302 5867 0.11 0.1507 -- 90.0
X Ray Diffraction 1.7638 1.8999 -- 273 6071 0.1072 0.1611 -- 92.0
X Ray Diffraction 1.8999 2.091 -- 355 6107 0.1098 0.1423 -- 94.0
X Ray Diffraction 2.091 2.3934 -- 354 6177 0.1225 0.1521 -- 95.0
X Ray Diffraction 2.3934 3.0146 -- 306 6168 0.1417 0.1732 -- 94.0
X Ray Diffraction 3.0146 24.7442 -- 312 5894 0.1434 0.1553 -- 88.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.6377
Anisotropic B[1][1] 1.9654
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -2.1
Anisotropic B[2][2] -2.3293
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.3639
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 17.445
f_plane_restr 0.005
f_chiral_restr 0.071
f_angle_d 1.048
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2326
Nucleic Acid Atoms 0
Heterogen Atoms 72
Solvent Atoms 349

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
PHASER model building
MAR345dtb data collection