X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 277.0
Details 12% PEG 5000 monomethyl ether, 20mM Hepes pH7.0, 10mM CaCl2, 100mM NaCl, 20% glycerol, 2mM DTT, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.48 α = 90
b = 180.18 β = 97.02
c = 98.6 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 1999-04-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-D -- APS 14-BM-D

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
2.6 22 95.1 0.049 -- -- 2.8 79760 75852 -- -3.0 27.9
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)
2.6 2.69 93.0 0.519 -- -- 1.7 7371

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
-- 2.65 15.0 0.0 0.0 81248 71918 7133 88.5 0.254 0.254 0.249 0.297 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 2.65 2.77 -- 685 6788 0.445 0.476 0.018 74.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 70.7
Anisotropic B[1][1] 7.5
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 12.04
Anisotropic B[2][2] -4.42
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.08
RMS Deviations
Key Refinement Restraint Deviation
c_mcbond_it 5.31
c_angle_deg 1.3
c_improper_angle_d 0.98
c_scangle_it 7.68
c_scbond_it 6.01
c_mcangle_it 6.65
c_bond_d 0.013
c_dihedral_angle_d 20.4
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.44
Luzzati Sigma A (Observed) 0.64
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.54
Luzzati Sigma A (R-Free Set) 0.7
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 13232
Nucleic Acid Atoms 2623
Heterogen Atoms 16
Solvent Atoms 193

Software

Software
Software Name Purpose
SOLVE phasing
MLPHARE phasing
DM model building
CNS refinement version: 1.0
DENZO data reduction
SCALEPACK data scaling
DM phasing