X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 20-28% PEG1000, 20% ETHYLENE GLYCOL, 75MM IMIDAZOLE PH7.5, PROTEIN SOLUTION LOADED WITH FE(II), ALPHA-KETOGLUTARATE, TAURINE, DITHIOTHREITOL, pH 7.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 116.79 α = 90
b = 116.79 β = 90
c = 201.94 γ = 120
Symmetry
Space Group P 62 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 1998-12-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-3 -- ESRF ID14-3

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 90 99.3 0.069 -- -- 8.0 -- 28679 -- -- --
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 2.64 99.1 0.311 -- 2.3 7.8 --

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 45.18 -- -- -- 25742 2840 99.3 -- 0.264 0.261 0.293 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 -- 219 1837 0.289 0.358 -- --
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.132
r_nbd_refined 0.246
r_scbond_it 2.132
r_bond_other_d 0.002
r_symmetry_vdw_refined 0.372
r_scangle_it 3.449
r_symmetry_vdw_other 0.297
r_mcbond_it 0.687
r_symmetry_hbond_refined 0.26
r_gen_planes_refined 0.008
r_dihedral_angle_3_deg 1.021
r_bond_refined_d 0.021
r_mcangle_it 1.218
r_xyhbond_nbd_other 0.1
r_gen_planes_other 0.004
r_angle_other_deg 2.045
r_xyhbond_nbd_refined 0.161
r_nbd_other 0.235
r_nbtor_other 0.107
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4357
Nucleic Acid Atoms 0
Heterogen Atoms 37
Solvent Atoms 22

Software

Software
Software Name Purpose
REFMAC refinement version: 5.0
MOSFLM data reduction
SCALA data scaling