X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Temperature 298.0
Details 10% PEG 6000, 10 mM potassium phosphate, 100 mM potassium chloride, 3 mM sodium dithionite, 10 mg/ml Hb, pH 7.0, batch, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 97.2 α = 90
b = 99.5 β = 90
c = 66 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR SDMS GRAPHITE 1995-10-28
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 -- -- --

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 -- 96.8 0.088 -- -- 6.2 -- 43249 -- 0.0 --
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 2.14 84.1 0.281 -- 1.4 3.1 --

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 1.99 10.0 -- 2.0 42346 39531 3594 -- -- -- 0.189 0.26 MATCHED TO PDB ENTRY 1XXT DATA
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 1.99 2.14 -- 556 -- 0.274 0.323 -- 84.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 24.93
RMS Deviations
Key Refinement Restraint Deviation
p_chiral_restr 0.149
p_singtor_nbd 0.167
p_planar_tor 2.5
p_plane_restr 0.012
p_bond_d 0.012
p_staggered_tor 21.0
p_mcbond_it 2.762
p_mcangle_it 3.741
p_hb_or_metal_coord 0.134
p_scbond_it 5.799
p_xyhbond_nbd 0.181
p_angle_d 0.027
p_scangle_it 7.39
p_transverse_tor 32.1
p_planar_d 0.047
p_multtor_nbd 0.178
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4370
Nucleic Acid Atoms 0
Heterogen Atoms 172
Solvent Atoms 194

Software

Software
Software Name Purpose
SDMS data collection
SDMS data reduction
X-PLOR model building
PROLSQ refinement
SDMS data scaling
X-PLOR phasing