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_scangle_it 3.449
r_scbond_it 2.132
r_mcangle_it 1.218
r_mcbond_it 0.687
r_nbd_refined 0.246
r_gen_planes_other 0.004
r_gen_planes_refined 0.008
r_chiral_restr 0.132
r_dihedral_angle_3_deg 1.021
r_angle_other_deg 2.045
r_bond_other_d 0.002
r_bond_refined_d 0.021
r_nbd_other 0.235
r_nbtor_other 0.107
r_xyhbond_nbd_refined 0.161
r_xyhbond_nbd_other 0.1
r_symmetry_vdw_refined 0.372
r_symmetry_vdw_other 0.297
r_symmetry_hbond_refined 0.26
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

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
REFMAC 5.0 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement