X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch
pH 5.7
Temperature 21.0
Details PEG 4000, 12% Cobalt Chloride, 70 mM Sodium cacodylate, pH 5.7, microbatch, temperature 21K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.01 α = 95.25
b = 56.38 β = 101.68
c = 59.37 γ = 116.2
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
3 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2000-01-22
CCD ADSC QUANTUM 4 -- 2000-01-22
CCD ADSC QUANTUM 4 -- 2000-01-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 0.9797,0.9794,0.9796 ALS 5.0.1
SYNCHROTRON ALS BEAMLINE 5.0.1 1.1000,0.9795 ALS 5.0.1
SYNCHROTRON ALS BEAMLINE 5.0.1 0.9796,0.9794,0.9782 ALS 5.0.1

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 28.9 89.6 0.058 -- -- 3.89 117032 104861 0.0 0.0 20.2
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 1.9 60.8 0.258 -- -- 3.62 11775

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
-- 1.8 28.93 0.0 0.0 115730 102210 9995 88.2 0.276 0.276 0.276 0.296 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 -- 645 6112 0.349 0.358 0.014 58.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 32.3
Anisotropic B[1][1] 1.99
Anisotropic B[1][2] 3.67
Anisotropic B[1][3] 4.82
Anisotropic B[2][2] -2.98
Anisotropic B[2][3] 2.69
Anisotropic B[3][3] 0.99
RMS Deviations
Key Refinement Restraint Deviation
c_scbond_it 1.92
c_bond_d 0.006
c_mcangle_it 2.07
c_scangle_it 2.88
c_improper_angle_d 0.71
c_mcbond_it 1.31
c_dihedral_angle_d 22.6
c_angle_deg 1.1
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.3
Luzzati Sigma A (Observed) 0.23
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.33
Luzzati Sigma A (R-Free Set) 0.24
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5149
Nucleic Acid Atoms 0
Heterogen Atoms 120
Solvent Atoms 328

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
CNS refinement
CNS phasing