X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.6
Temperature 293.0
Details 0.25 M CaAcetate, pH 8.6, 7.5% PEG20K and 7.5% PEG MME500, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 178.79 α = 90
b = 105.85 β = 118.1
c = 186.4 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2007-04-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE A1 0.979 CHESS A1

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
2.9 50 96.7 0.075 -- -- 3.3 -- 66514 -- -- --
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)
2.9 2.95 87.8 0.764 -- -- 3.0 2987

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 2.9 45.542 -- 1.33 -- 66514 3633 88.58 -- 0.203 0.2017 0.2431 --
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 2.9 2.9147 -- 80 2482 0.3946 0.4719 -- 49.0
X Ray Diffraction 2.9147 2.9546 -- 120 4048 0.345 0.3573 -- 79.0
X Ray Diffraction 2.9546 2.9968 -- 120 4124 0.3293 0.4225 -- 81.0
X Ray Diffraction 2.9968 3.0415 -- 135 4162 0.3117 0.3888 -- 80.0
X Ray Diffraction 3.0415 3.089 -- 125 4196 0.3024 0.3421 -- 83.0
X Ray Diffraction 3.089 3.1397 -- 137 4272 0.2845 0.3074 -- 83.0
X Ray Diffraction 3.1397 3.1938 -- 136 4235 0.2714 0.3425 -- 84.0
X Ray Diffraction 3.1938 3.2518 -- 145 4443 0.263 0.3192 -- 86.0
X Ray Diffraction 3.2518 3.3144 -- 140 4435 0.2585 0.3421 -- 87.0
X Ray Diffraction 3.3144 3.382 -- 142 4473 0.2465 0.3218 -- 88.0
X Ray Diffraction 3.382 3.4555 -- 142 4623 0.2341 0.2661 -- 89.0
X Ray Diffraction 3.4555 3.5359 -- 141 4564 0.2301 0.2515 -- 90.0
X Ray Diffraction 3.5359 3.6243 -- 142 4677 0.2388 0.2705 -- 91.0
X Ray Diffraction 3.6243 3.7222 -- 143 4729 0.2401 0.2719 -- 92.0
X Ray Diffraction 3.7222 3.8317 -- 149 4753 0.2081 0.2967 -- 93.0
X Ray Diffraction 3.8317 3.9553 -- 150 4831 0.2057 0.2418 -- 95.0
X Ray Diffraction 3.9553 4.0966 -- 150 4833 0.1942 0.2794 -- 95.0
X Ray Diffraction 4.0966 4.2605 -- 153 4882 0.1584 0.2167 -- 96.0
X Ray Diffraction 4.2605 4.4542 -- 143 4884 0.1502 0.1854 -- 95.0
X Ray Diffraction 4.4542 4.6888 -- 145 4922 0.1322 0.1579 -- 96.0
X Ray Diffraction 4.6888 4.9823 -- 145 4925 0.1419 0.1596 -- 96.0
X Ray Diffraction 4.9823 5.3664 -- 147 4909 0.1693 0.2016 -- 96.0
X Ray Diffraction 5.3664 5.9054 -- 150 4895 0.2027 0.2238 -- 96.0
X Ray Diffraction 5.9054 6.7575 -- 152 4907 0.2247 0.2894 -- 96.0
X Ray Diffraction 6.7575 8.5047 -- 152 4831 0.1815 0.1757 -- 95.0
X Ray Diffraction 8.5047 45.542 -- 149 4520 0.186 0.2395 -- 89.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 87.7514
Anisotropic B[1][1] 4.9747
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -4.9814
Anisotropic B[2][2] -3.6998
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.2749
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 13.297
f_plane_restr 0.006
f_chiral_restr 0.088
f_angle_d 1.126
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 18850
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 70

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-3000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7.1_743) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
phenix refinement
Phaser molecular replacement
SCALEPACK data reduction