X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details DROP: 5MG/ML TYRRSTT+TRNA(TYR)WITH 5MM TYROSINOL, 10MM MGCL2, 10MM ATP, 50MM HEPES (PH7.0), 0.8M AMMONIUM SULPHATE. RESERVOIR: 1.5-1.6M AMMONIUM SULPHATE, 100MM HEPES (PH7.0)., pH 7.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 129.52 α = 90
b = 129.52 β = 90
c = 109.45 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- 2001-02-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
2.9 23 94.9 0.075 -- -- 3.4 -- 22669 -- -- 115.5
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)
2.9 2.98 63.8 0.509 -- 1.5 1.8 --

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 2.9 22.99 -- 0.0 -- 22644 1149 94.9 -- 0.219 0.219 0.269 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 2.9 3.08 -- 155 2774 0.367 0.391 0.031 74.7
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 77.3
Anisotropic B[1][1] 10.06
Anisotropic B[1][2] 22.22
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 10.06
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -20.13
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 8.15
c_mcbond_it 1.21
c_dihedral_angle_d 26.9
c_improper_angle_d 1.26
c_mcangle_it 2.09
c_bond_d 0.007
c_angle_deg 1.3
c_scbond_it 5.35
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.38
Luzzati Sigma A (Observed) 0.63
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.47
Luzzati Sigma A (R-Free Set) 0.71
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3403
Nucleic Acid Atoms 1762
Heterogen Atoms 43
Solvent Atoms 13

Software

Software
Software Name Purpose
CNS refinement version: 1.0
MOSFLM data reduction
SCALA data scaling
MOLREP phasing