X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.4
Details PROTEIN WAS CRYSTALLIZED FROM 10MG/ML PROTEIN, 1% 2-PROPANOL, 1% PEG-4000, 0.1 M SODIUM CITRATE PH 5.4.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.12 α = 90
b = 57.12 β = 90
c = 80.5 γ = 90
Symmetry
Space Group P 42 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IIC MIRRORS 1995-10
Diffraction Radiation
Monochromator Protocol
NI --
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
2.2 50 77.0 -- -- -- -- -- 4996 -- 2.0 20.1
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)
2.2 2.34 45.6 -- -- -- -- --

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
DIRECT PHASING 2.2 50.0 -- 2.0 -- 4996 515 69.5 -- 0.205 0.205 0.267 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 2.2 2.34 -- 43 479 0.303 0.38 0.058 45.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 32.3
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 7.86
x_scbond_it 5.24
x_mcangle_it 4.95
x_mcbond_it 3.33
x_improper_angle_d 1.44
x_bond_d 0.007
x_angle_deg 1.4
x_dihedral_angle_d 22.1
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.27
Luzzati Sigma A (Observed) 0.37
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.34
Luzzati Sigma A (R-Free Set) 0.47
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 878
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 14

Software

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