X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 293.0
Details PROTEIN WAS CRYSTALLIZED FROM 12% PEG6000, 20 MM CACL2, 50 MM CACODYLATE BUFFER, PH7.4

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 49.54 α = 90
b = 80.09 β = 91.33
c = 56.89 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M -- 2013-09-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 0.9673 Diamond I03

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
2.05 80.09 91.8 0.062 -- -- 3.4 87320 25589 -- -- --
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)
2.05 2.1 70.0 0.603 -- 2.3 2.6 --

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
-- 2.05 80.09 -- -- -- 24048 1289 90.71 -- 0.23333 0.23073 0.27936 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 2.05 2.103 -- 67 1263 0.598 0.613 -- 65.32
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.244
Anisotropic B[1][1] -0.89
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.03
Anisotropic B[2][2] 1.24
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.3
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.001
r_scangle_other 3.8
r_chiral_restr 0.114
r_mcangle_other 2.895
r_mcbond_other 1.933
r_mcangle_it 2.895
r_angle_refined_deg 1.742
r_mcbond_it 1.934
r_angle_other_deg 0.933
r_scbond_other 2.47
r_bond_refined_d 0.016
r_dihedral_angle_2_deg 32.958
r_dihedral_angle_1_deg 6.143
r_long_range_B_other 6.613
r_dihedral_angle_4_deg 13.575
r_dihedral_angle_3_deg 18.106
r_long_range_B_refined 6.648
r_scbond_it 2.471
r_bond_other_d 0.002
r_gen_planes_refined 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2806
Nucleic Acid Atoms 0
Heterogen Atoms 34
Solvent Atoms 140

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0049