X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 298.0
Details 8% Tacsimate, 20% PEG 3,350, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 148.43 α = 90
b = 79.6 β = 111.65
c = 95.21 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2013-02-27
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.97950 APS 24-ID-C

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
2.19 46.69 98.2 0.059 -- -- 3.0 52772 52477 2.0 1.0 --
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)
2.19 2.3 98.3 0.615 -- 1.8 2.9 --

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 2.186 46.687 -- 1.34 52772 52457 2000 98.01 -- 0.1803 0.179 0.2108 --
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 2.1857 2.2404 -- 142 3589 0.2834 0.352 -- 99.0
X Ray Diffraction 2.2404 2.301 -- 141 3573 0.2662 0.2912 -- 98.0
X Ray Diffraction 2.301 2.3687 -- 144 3595 0.2399 0.2871 -- 98.0
X Ray Diffraction 2.3687 2.4451 -- 143 3614 0.2244 0.277 -- 99.0
X Ray Diffraction 2.4451 2.5325 -- 143 3611 0.2123 0.2502 -- 99.0
X Ray Diffraction 2.5325 2.6339 -- 144 3655 0.2043 0.2519 -- 99.0
X Ray Diffraction 2.6339 2.7537 -- 144 3614 0.2045 0.2409 -- 98.0
X Ray Diffraction 2.7537 2.8989 -- 142 3594 0.2035 0.2413 -- 98.0
X Ray Diffraction 2.8989 3.0805 -- 143 3601 0.1931 0.2346 -- 99.0
X Ray Diffraction 3.0805 3.3183 -- 143 3584 0.1817 0.2284 -- 98.0
X Ray Diffraction 3.3183 3.6521 -- 141 3566 0.1654 0.2309 -- 96.0
X Ray Diffraction 3.6521 4.1803 -- 142 3597 0.1521 0.1734 -- 98.0
X Ray Diffraction 4.1803 5.2656 -- 143 3608 0.1373 0.1518 -- 97.0
X Ray Diffraction 5.2656 46.6978 -- 145 3656 0.1696 0.1806 -- 97.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 13.123
f_chiral_restr 0.068
f_angle_d 1.168
f_bond_d 0.007
f_plane_restr 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3321
Nucleic Acid Atoms 1815
Heterogen Atoms 43
Solvent Atoms 466

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
RAPD model building
PHENIX refinement version: (phenix.refine: 1.8.2_1309)
HKL-2000 data reduction
RAPD data scaling
RAPD phasing