X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.4
Details 40%(W/V) AMMONIUM SULFATE, 2%(V/V) PEG400, 0.1M TRIS (PH 8.5), CROSSLINKING WITH 0.1% GLUTARALDEHYDE. TRANSFER TO AMMONIUM SULFATE-FREE, 30% PEG4000, CHANGE OF THE BUFFER TO 0.1M SODIUM ACETATE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 108.47 α = 90
b = 91.7 β = 91.94
c = 130.62 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 295
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate COLLIMATOR 1998-08-15
Diffraction Radiation
Monochromator Protocol
GRAPHITE CRYSTAL 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
1.8 40 86.0 -- 0.076 -- 2.8 -- 102023 -- -3.0 --
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)
1.8 1.86 65.4 -- 0.337 2.8 -- --

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 1.8 10.0 -- 2.0 -- 89630 1773 76.2 -- 0.168 0.168 0.188 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 1.86 -- 91 5101 0.291 0.301 0.031 44.3
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 19.4
Anisotropic B[1][1] -2.445
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.122
Anisotropic B[2][2] -0.613
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.059
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 2.5
c_angle_deg 1.303
c_dihedral_angle_d 23.59
c_mcangle_it 2.0
c_scbond_it 2.0
c_mcbond_it 1.5
c_bond_d 0.0059
c_improper_angle_d 0.755
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.19
Luzzati Sigma A (Observed) 0.26
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.21
Luzzati Sigma A (R-Free Set) 0.27
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9353
Nucleic Acid Atoms 0
Heterogen Atoms 40
Solvent Atoms 961

Software

Software
Software Name Purpose
CNS refinement version: 1.0
DENZO data reduction
SCALEPACK data scaling