X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Batch Method
pH 6.5
Details 25MG/ML PROTEIN WAS DISSOLVED IN 0.1M SODIUM/ POTASSIUM PHOSPHATE BUFFER (PH 7.0) AND CRYSTALLIZED BY THE BATCH METHOD FROM 2M AMMONIUM SULFATE (PH 6.5) AND 0.4M SODIUM/POTASSIUM PHOSPHATE BUFFER (PH 7.6)., batch method

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.8 α = 123.4
b = 49.5 β = 97.3
c = 56.6 γ = 103.7
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 293
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR XENTRONICS COLLIMATOR 1988-09
Diffraction Radiation
Monochromator Protocol
NI FILTER --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH2R -- -- --

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
1.8 15 97.0 0.07 0.1 -- 2.1 -- 25155 -- 0.0 23.5
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)
1.8 1.96 78.0 0.07 0.1 3.0 1.2 --

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 1.8 15.0 -- 0.0 -- 25135 1256 96.0 -- 0.181 0.181 0.243 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 1.8 1.88 -- 874 16053 0.3 0.33 -- 67.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 25.07
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 2.0
x_scbond_it 2.0
x_mcangle_it 1.5
x_mcbond_it 1.2
x_improper_angle_d 1.366
x_bond_d 0.013
x_angle_deg 1.545
x_dihedral_angle_d 26.08
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2466
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 197

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
CCP4 (AGROVATA, ROTAVATA) Data Reduction (data scaling)
X-PLOR Structure Solution
X-PLOR Structure Refinement
Software
Software Name Purpose
X-PLOR refinement
X-PLOR model building
AGROVATA data reduction
ROTAVATA data reduction
XDS data collection