X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Details 10% PEG8000, 100MM TRIS-HCL PH8.0, 20% GLYCEROL, 100MM ARABINOTRIOSE, pH 8.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.61 α = 90
b = 90.61 β = 90
c = 177.55 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 -- ESRF ID14-2

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
2.5 20 100.0 0.082 -- -- 10.47 -- 15610 -- -- --
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)
2.5 2.56 100.0 0.447 -- 6.1 10.74 --

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 2.5 20.0 -- -- -- 15073 484 100.0 -- 0.19 0.188 0.238 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 2.5 2.56 -- 43 1063 0.217 0.285 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.33
Anisotropic B[1][1] 2.9
Anisotropic B[1][2] 1.45
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.9
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.36
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.3
r_angle_other_deg 1.763
r_chiral_restr 7.284
r_gen_planes_refined 0.006
r_bond_refined_d 0.019
r_mcbond_it 0.672
r_symmetry_vdw_refined 0.155
r_nbd_refined 0.208
r_symmetry_hbond_refined 0.15
r_xyhbond_nbd_refined 0.179
r_mcangle_it 1.221
r_scbond_it 2.249
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2537
Nucleic Acid Atoms 0
Heterogen Atoms 56
Solvent Atoms 77

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.13
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing