X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 7-12% PEG 20000, 100 mM MES pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 68.97 α = 90
b = 114.42 β = 90
c = 128.63 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 ADSC QUANTUM 210 -- 2011-01-29
Diffraction Radiation
Monochromator Protocol
ID14-1 Diamond (111), Ge(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.93340 ESRF ID14-1

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
3.1 44 97.7 15.8 -- -- 4.0 -- 18522 -- -- 60.05
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)
3.1 3.27 98.8 0.45 0.25 3.0 4.0 2703

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 3.1 44.0 -- 0.0 -- 18500 950 96.88 -- 0.1657 0.1631 0.2174 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 3.1 3.29 -- 173 2817 0.185 0.257 -- 96.88
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.07
Anisotropic B[1][1] 4.5652
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.5752
RMS Deviations
Key Refinement Restraint Deviation
t_omega_torsion 3.21
t_bond_d 0.01
t_angle_deg 1.09
t_other_torsion 3.12
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.467
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6125
Nucleic Acid Atoms 492
Heterogen Atoms 20
Solvent Atoms 212

Software

Software
Software Name Purpose
DNA data collection
PHASER phasing
BUSTER refinement version: 2.11.2
XDS data reduction
SCALA data scaling