X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 298.0
Details PEG3000, cacodylic acid, potassium chloride, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 255.55 α = 90
b = 266.86 β = 90
c = 187.05 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline

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
2.8 50 -- -- -- -- -- -- 231127 -- -- --

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 2.808 49.386 -- 0.0 231127 231127 4675 -- 0.248 0.248 0.2471 0.2741 --
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 2.808 2.8807 -- 161 8725 0.427 0.518 -- --
X Ray Diffraction 2.881 2.9594 -- 220 10224 0.395 0.398 -- --
X Ray Diffraction 2.959 3.0448 -- 225 11659 0.355 0.395 -- --
X Ray Diffraction 3.045 3.1382 -- 268 13222 0.337 0.372 -- --
X Ray Diffraction 3.138 3.2407 -- 288 14337 0.312 0.319 -- --
X Ray Diffraction 3.241 3.3539 -- 316 14909 0.303 0.341 -- --
X Ray Diffraction 3.354 3.4799 -- 299 15092 0.293 0.301 -- --
X Ray Diffraction 3.48 3.6212 -- 304 14745 0.256 0.289 -- --
X Ray Diffraction 3.621 3.7813 -- 303 14475 0.265 0.292 -- --
X Ray Diffraction 3.781 3.9647 -- 279 13514 0.242 0.256 -- --
X Ray Diffraction 3.965 4.1777 -- 255 13604 0.199 0.208 -- --
X Ray Diffraction 4.178 4.4291 -- 260 13379 0.179 0.221 -- --
X Ray Diffraction 4.429 4.7322 -- 266 12583 0.18 0.227 -- --
X Ray Diffraction 4.732 5.1075 -- 235 12040 0.202 0.233 -- --
X Ray Diffraction 5.107 5.589 -- 239 11173 0.252 0.316 -- --
X Ray Diffraction 5.589 6.2387 -- 203 10314 0.271 0.262 -- --
X Ray Diffraction 6.239 7.1847 -- 207 9307 0.239 0.277 -- --
X Ray Diffraction 7.185 8.7533 -- 155 8077 0.169 0.195 -- --
X Ray Diffraction 8.753 12.189 -- 121 6297 0.148 0.152 -- --
X Ray Diffraction 12.189 49.3865 -- 71 3451 0.281 0.288 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 2.535
Anisotropic B[1][1] -4.331
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.725
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 8.056
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.235
r_scbond_it 0.84
r_mcangle_it 0.386
r_mcbond_it 0.218
r_symmetry_vdw_refined 0.324
r_metal_ion_refined 0.264
r_symmetry_hbond_refined 0.173
r_gen_planes_refined 0.006
r_chiral_restr 0.123
r_dihedral_angle_1_deg 6.242
r_angle_refined_deg 2.039
r_bond_refined_d 0.027
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 59073
Nucleic Acid Atoms 0
Heterogen Atoms 231
Solvent Atoms 194

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC5 (CCP4: Supported Program) version: refmac_5.1.19 refinement