X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Details pH 8.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.1 α = 90
b = 58.1 β = 90
c = 155.65 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B -- EMBL/DESY, Hamburg BW7B

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
1.3 20 92.9 0.057 -- -- 10.5 -- 28517 -- 2.0 --

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
SIRAS 1.27 10.0 -- -- -- 23971 1269 93.3 -- 0.136 0.134 0.168 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 1.27 1.3 -- 88 1805 0.238 0.277 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.94
Anisotropic B[1][1] 1.29
Anisotropic B[1][2] 0.64
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.29
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.93
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.02
r_xyhbond_nbd_refined 0.237
r_chiral_restr 0.16
r_scangle_it 9.774
r_symmetry_hbond_refined 0.38
r_symmetry_vdw_other 0.322
r_nbd_other 0.239
r_symmetry_vdw_refined 0.313
r_scbond_it 8.06
r_gen_planes_other 0.004
r_xyhbond_nbd_other 0.336
r_bond_other_d 0.0
r_dihedral_angle_3_deg 19.729
r_nbd_refined 0.24
r_angle_refined_deg 2.048
r_mcangle_it 5.649
r_dihedral_angle_1_deg 5.604
r_angle_other_deg 2.514
r_gen_planes_refined 0.02
r_mcbond_it 4.233
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 713
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 145

Software

Software
Software Name Purpose
REFMAC refinement version: 5.0
DENZO data reduction
SCALEPACK data scaling
autoSHARP phasing