X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Details 3MG/ML PROTEIN VAPOUR DIFFUSION WITH MOTHER LIQUOR: 5% PEG8000, 0.1 M TRIS-HCL, PH8.5, pH 8.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 111.06 α = 90
b = 111.06 β = 90
c = 111.06 γ = 90
Symmetry
Space Group P 21 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-11-18
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I711 -- MAX_II I711

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
1.88 45 100.0 0.042 -- -- 11.2 -- 37385 -- -- --
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)
1.88 1.92 99.9 0.136 -- 21.0 -- --

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 1.88 19.65 -- -- -- 35449 1861 100.0 -- 0.148 0.147 0.184 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 1.88 1.93 -- 134 2573 0.158 0.219 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.66
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.193
r_dihedral_angle_1_deg 6.816
r_scbond_it 2.947
r_symmetry_hbond_refined 0.295
r_gen_planes_other 0.003
r_nbd_other 0.243
r_scangle_it 4.887
r_symmetry_vdw_refined 0.363
r_symmetry_vdw_other 0.31
r_bond_other_d 0.002
r_mcbond_it 1.02
r_bond_refined_d 0.018
r_gen_planes_refined 0.007
r_xyhbond_nbd_refined 0.173
r_nbtor_other 0.086
r_mcangle_it 1.936
r_chiral_restr 0.176
r_angle_refined_deg 1.637
r_angle_other_deg 0.926
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2879
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 398

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
SCALEPACK data scaling
SOLVE phasing