X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Details PROTEIN: 12 MG/ML IN 50 MM TRIS/HCL, PH 8.0, MIXED 5:1 WITH 40% (W/V) PEG 1000; RESERVOIR: 0.18-0.20 M SODIUM PHOSPHATE, PH 8.0 HARVESTED IN: 3 M SODIUM ACETATE, PH 7.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.7 α = 90
b = 77.7 β = 90
c = 359.5 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 275
Diffraction Detector
Detector Diffraction Type Details Collection Date
FILM KODAK NI-FILTER, DOUBLE-FOCUSING MIRROR SYSTEM --
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
2.5 29.39 81.3 0.0602 -- -- 2.9 -- 19789 -- 0.0 29.9
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 2.61 42.4 -- -- -- -- --

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
MIR 2.5 29.4 -- 2.0 -- 17259 1889 73.7 -- 0.166 0.166 0.26 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 2.61 -- 134 1059 0.25 0.366 -- 37.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 26.6
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 2.5
x_scbond_it 2.0
x_mcangle_it 2.0
x_mcbond_it 1.5
x_improper_angle_d 0.714
x_bond_d 0.008
x_angle_deg 1.49
x_dihedral_angle_d 27.51
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.25
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4443
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 161

Software

Computing
Computing Package Purpose
FILME Data Reduction (intensity integration)
PROTEIN Data Reduction (data scaling)
PROTEIN Structure Solution
X-PLOR 3.851 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.185 refinement
PROTEIN model building
PROTEIN data reduction
FILME data collection