X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 293.0
Details 30% PEG3350, 0.1M MES, 0.2M MgCl, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.75 α = 90
b = 75.54 β = 90
c = 89.22 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.97946 SSRL BL11-1

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
2.3 44.59 90.7 -- 0.091 -- 4.5 -- 12593 -- -- 37.2
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)
2.3 2.36 72.3 -- 0.49 1.7 2.7 763

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
FOURIER SYNTHESIS 2.3 36.31 -- -- -- 12593 658 90.7 -- 0.23004 0.22734 0.28289 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 2.3 2.36 -- 41 725 0.275 0.354 -- 72.33
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 43.673
Anisotropic B[1][1] 3.19
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.95
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.24
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.226
r_scbond_it 1.373
r_mcangle_it 1.109
r_mcbond_it 0.635
r_nbd_refined 0.194
r_gen_planes_refined 0.003
r_chiral_restr 0.075
r_dihedral_angle_4_deg 19.11
r_dihedral_angle_3_deg 15.98
r_dihedral_angle_2_deg 32.585
r_dihedral_angle_1_deg 5.196
r_angle_refined_deg 1.061
r_bond_refined_d 0.009
r_nbtor_refined 0.302
r_xyhbond_nbd_refined 0.15
r_symmetry_vdw_refined 0.158
r_symmetry_hbond_refined 0.199
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2228
Nucleic Acid Atoms 0
Heterogen Atoms 21
Solvent Atoms 70

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
Refmac Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
Refmac model building
ADSC version: Quantum data collection