X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 291.15
Details 100 mM Tris, 1 mM DTT, 10 % DMSO, 12% PEG 8000, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 291.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 91.43 α = 90
b = 64.99 β = 96.1
c = 70.2 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 113.15
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD morror 2010-10-21
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 0.91841 BESSY 14.2

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
1.29 50 97.1 -- -- -- 2.7 99752 99752 -- -- 8.85
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)
1.29 1.31 81.5 -- -- 3.02 1.7 4187

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 1.29 16.275 -- 1.0 96177 96177 9637 93.7 -- 0.1651 0.1628 0.1855 Random, 10%
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 1.29 1.3047 -- 260 2231 0.2279 0.2657 -- 72.0
X Ray Diffraction 1.3047 1.3201 -- 238 2451 0.2221 0.2705 -- 79.0
X Ray Diffraction 1.3201 1.3362 -- 304 2556 0.2019 0.2233 -- 84.0
X Ray Diffraction 1.3362 1.3531 -- 285 2661 0.1897 0.2407 -- 87.0
X Ray Diffraction 1.3531 1.3709 -- 299 2718 0.1872 0.2176 -- 88.0
X Ray Diffraction 1.3709 1.3896 -- 290 2736 0.181 0.2209 -- 90.0
X Ray Diffraction 1.3896 1.4095 -- 318 2876 0.1784 0.2186 -- 92.0
X Ray Diffraction 1.4095 1.4305 -- 302 2784 0.1682 0.2193 -- 92.0
X Ray Diffraction 1.4305 1.4528 -- 294 2869 0.1658 0.2092 -- 93.0
X Ray Diffraction 1.4528 1.4766 -- 331 2916 0.1604 0.1929 -- 94.0
X Ray Diffraction 1.4766 1.5021 -- 318 2855 0.1533 0.2 -- 95.0
X Ray Diffraction 1.5021 1.5294 -- 321 2904 0.1531 0.1837 -- 95.0
X Ray Diffraction 1.5294 1.5588 -- 327 2957 0.1506 0.1745 -- 95.0
X Ray Diffraction 1.5588 1.5906 -- 375 2860 0.1514 0.1871 -- 95.0
X Ray Diffraction 1.5906 1.6251 -- 336 2914 0.1499 0.1915 -- 96.0
X Ray Diffraction 1.6251 1.6629 -- 348 2908 0.1564 0.1832 -- 96.0
X Ray Diffraction 1.6629 1.7044 -- 312 3006 0.1602 0.1985 -- 96.0
X Ray Diffraction 1.7044 1.7505 -- 335 2962 0.1583 0.1879 -- 97.0
X Ray Diffraction 1.7505 1.8019 -- 347 2977 0.1605 0.1971 -- 97.0
X Ray Diffraction 1.8019 1.86 -- 322 3010 0.154 0.1795 -- 98.0
X Ray Diffraction 1.86 1.9264 -- 331 3023 0.1628 0.1875 -- 98.0
X Ray Diffraction 1.9264 2.0034 -- 338 3052 0.1593 0.1931 -- 99.0
X Ray Diffraction 2.0034 2.0943 -- 348 3057 0.1588 0.1711 -- 100.0
X Ray Diffraction 2.0943 2.2045 -- 349 3061 0.1547 0.1771 -- 100.0
X Ray Diffraction 2.2045 2.3423 -- 374 3072 0.1572 0.1721 -- 99.0
X Ray Diffraction 2.3423 2.5225 -- 359 3022 0.1559 0.1852 -- 99.0
X Ray Diffraction 2.5225 2.7752 -- 321 3095 0.1688 0.1836 -- 99.0
X Ray Diffraction 2.7752 3.1742 -- 318 3102 0.1572 0.1635 -- 99.0
X Ray Diffraction 3.1742 3.9894 -- 336 3047 0.1484 0.1627 -- 98.0
X Ray Diffraction 3.9894 16.275 -- 301 2858 0.1826 0.1871 -- 90.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Anisotropic B[1][1] -0.0306
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.7146
Anisotropic B[2][2] -1.1613
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.1919
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.069
f_dihedral_angle_d 12.416
f_angle_d 1.06
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2857
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 524

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: 1.7.2_869) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.2_869) refinement
Phaser model building
MAR345dtb data collection