X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 291.15
Details 15.2% w/v PEG8000, 15 mM TCEP, 80 mM sodium cacodylate, pH 6.5, 160 mM calcium acetate, 20% v/v glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 291.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 245.78 α = 90
b = 85.09 β = 127.54
c = 158.46 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 113.5
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2012-10-15
Diffraction Radiation
Monochromator Protocol
Rosenbaum-Rock high-resolution double-crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97895 APS 19-ID

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
2.03 50 98.2 -- 0.086 -- 4.13 166830 163827 0.0 -3.0 27.23
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)
2.03 2.07 97.0 -- 0.585 2.75 3.8 8053

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
MR/SAD 2.03 42.547 -- 0.0 166830 149417 7469 89.29 -- 0.1726 0.1707 0.2098 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 2.03 2.0533 -- 75 1495 0.2255 0.2972 -- 28.0
X Ray Diffraction 2.0533 2.0775 -- 109 1985 0.2068 0.2425 -- 38.0
X Ray Diffraction 2.0775 2.1028 -- 140 2404 0.2106 0.276 -- 46.0
X Ray Diffraction 2.1028 2.1295 -- 154 3062 0.2226 0.2935 -- 58.0
X Ray Diffraction 2.1295 2.1575 -- 190 3819 0.2119 0.2472 -- 72.0
X Ray Diffraction 2.1575 2.187 -- 244 4436 0.2108 0.254 -- 84.0
X Ray Diffraction 2.187 2.2183 -- 241 4856 0.2154 0.2655 -- 92.0
X Ray Diffraction 2.2183 2.2514 -- 259 4949 0.2049 0.2466 -- 94.0
X Ray Diffraction 2.2514 2.2866 -- 267 5068 0.1965 0.2538 -- 96.0
X Ray Diffraction 2.2866 2.324 -- 270 5115 0.1904 0.2385 -- 97.0
X Ray Diffraction 2.324 2.3641 -- 270 5222 0.1983 0.2515 -- 98.0
X Ray Diffraction 2.3641 2.4071 -- 292 5107 0.1867 0.2305 -- 98.0
X Ray Diffraction 2.4071 2.4534 -- 268 5185 0.1899 0.2453 -- 98.0
X Ray Diffraction 2.4534 2.5035 -- 262 5228 0.1863 0.2476 -- 98.0
X Ray Diffraction 2.5035 2.5579 -- 266 5168 0.1889 0.2294 -- 98.0
X Ray Diffraction 2.5579 2.6174 -- 283 5165 0.1852 0.2281 -- 99.0
X Ray Diffraction 2.6174 2.6828 -- 270 5206 0.1823 0.2583 -- 98.0
X Ray Diffraction 2.6828 2.7554 -- 262 5251 0.1732 0.2369 -- 99.0
X Ray Diffraction 2.7554 2.8364 -- 286 5210 0.1734 0.2094 -- 98.0
X Ray Diffraction 2.8364 2.928 -- 275 5200 0.1703 0.2243 -- 99.0
X Ray Diffraction 2.928 3.0326 -- 268 5253 0.1643 0.1927 -- 99.0
X Ray Diffraction 3.0326 3.154 -- 284 5259 0.165 0.218 -- 99.0
X Ray Diffraction 3.154 3.2975 -- 279 5211 0.1525 0.1828 -- 99.0
X Ray Diffraction 3.2975 3.4712 -- 278 5257 0.1468 0.1945 -- 99.0
X Ray Diffraction 3.4712 3.6886 -- 270 5293 0.1428 0.1659 -- 99.0
X Ray Diffraction 3.6886 3.9732 -- 271 5239 0.1458 0.1819 -- 99.0
X Ray Diffraction 3.9732 4.3727 -- 285 5305 0.1443 0.185 -- 99.0
X Ray Diffraction 4.3727 5.0046 -- 283 5324 0.1448 0.1814 -- 99.0
X Ray Diffraction 5.0046 6.3019 -- 275 5337 0.1887 0.2019 -- 99.0
X Ray Diffraction 6.3019 42.5558 -- 293 5339 0.1944 0.2125 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 36.11
Anisotropic B[1][1] -1.6303
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 3.3484
Anisotropic B[2][2] 5.0352
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.4049
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_dihedral_angle_d 13.794
f_bond_d 0.01
f_angle_d 0.988
f_chiral_restr 0.074
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15806
Nucleic Acid Atoms 0
Heterogen Atoms 96
Solvent Atoms 1058

Software

Software
Software Name Purpose
HKL-3000 data collection
PHASER phasing
PHENIX refinement version: (phenix.refine: 1.7.3_928)
HKL-3000 data reduction
HKL-3000 data scaling