X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

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 = 69.3 α = 90
b = 71.2 β = 99.9
c = 72.4 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 2009-06-22
Diffraction Radiation
Monochromator Protocol
-- 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
1.53 50 96.4 -- 0.035 -- 2.9 50478 50478 -- -- 14.43
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)
1.53 1.56 92.2 -- 0.357 2.7 2.7 2436

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 1.53 35.661 -- 0.0 50305 47916 2389 91.6 0.16 0.16 0.1587 0.1856 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 1.53 1.5847 -- 187 3968 0.2204 0.2402 -- 80.0
X Ray Diffraction 1.5847 1.6482 -- 218 4140 0.1998 0.2456 -- 83.0
X Ray Diffraction 1.6482 1.7232 -- 213 4241 0.1786 0.2197 -- 86.0
X Ray Diffraction 1.7232 1.814 -- 226 4390 0.1561 0.1966 -- 89.0
X Ray Diffraction 1.814 1.9277 -- 234 4519 0.1535 0.1716 -- 91.0
X Ray Diffraction 1.9277 2.0765 -- 254 4700 0.1498 0.1721 -- 95.0
X Ray Diffraction 2.0765 2.2854 -- 249 4830 0.1531 0.1672 -- 98.0
X Ray Diffraction 2.2854 2.6161 -- 265 4904 0.1602 0.1875 -- 99.0
X Ray Diffraction 2.6161 3.2956 -- 289 4905 0.1652 0.2177 -- 99.0
X Ray Diffraction 3.2956 35.6706 -- 254 4930 0.1468 0.1619 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.4019
Anisotropic B[1][1] 3.3799
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -3.0716
Anisotropic B[2][2] -2.441
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.939
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 17.032
f_plane_restr 0.005
f_chiral_restr 0.075
f_angle_d 1.083
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2340
Nucleic Acid Atoms 0
Heterogen Atoms 65
Solvent Atoms 297

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