X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 20.0
Details 2.0 M lithium sulfate 0.01 M magnesium chloride 0.1 M MES buffer ~0.1 mM 21 bp duplex DNA oligomer, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 20K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.31 α = 90
b = 113.97 β = 90
c = 236.21 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD APS-1 -- 1999-12-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID -- APS 19-ID

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 20 95.9 0.055 -- -- 10.9 82283 82283 -- -- 29.9
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)
2.0 2.1 75.4 0.311 -- -- 5.4 3171

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
-- 2.0 20.0 -- -- 82283 82283 5 95.6 -- -- 0.214 0.272 5% of reflections reserved using the UNIQUEIFY script from CCP4
RMS Deviations
Key Refinement Restraint Deviation
p_planar_tor 2.6
p_staggered_tor 16.7
p_bond_d 0.007
p_angle_deg 1.6
p_transverse_tor 26.6
p_mcbond_it 5.7
p_scbond_it 6.7
p_planar_d 0.016
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6927
Nucleic Acid Atoms 0
Heterogen Atoms 98
Solvent Atoms 792

Software

Software
Software Name Purpose
AMoRE phasing
DM model building
REFMAC refinement
TNT refinement
DENZO data reduction
CCP4 data scaling version: (TRUNCATE)
DM phasing