X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5
Temperature 293.0
Details 0.1 M NaAc, 10% MPD, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 85.38 α = 90
b = 97.88 β = 90
c = 133.46 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 200
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2013-02-21
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-E 0.9792 APS 24-ID-E

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
1.94 50 98.9 -- -- -- -- 41683 41225 2.0 2.0 --
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)
1.94 2.04 93.5 -- -- -- -- --

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 1.94 39.453 -- 1.34 41683 41225 1999 98.82 -- 0.1593 0.1572 0.1992 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 1.94 1.988 -- 124 2441 0.2913 0.3341 -- 88.0
X Ray Diffraction 1.988 2.0417 -- 140 2734 0.2254 0.2545 -- 98.0
X Ray Diffraction 2.0417 2.1018 -- 143 2794 0.1935 0.2705 -- 100.0
X Ray Diffraction 2.1018 2.1696 -- 144 2836 0.176 0.2423 -- 100.0
X Ray Diffraction 2.1696 2.2472 -- 141 2784 0.1665 0.203 -- 100.0
X Ray Diffraction 2.2472 2.3371 -- 144 2813 0.1589 0.206 -- 100.0
X Ray Diffraction 2.3371 2.4435 -- 144 2825 0.1597 0.2166 -- 100.0
X Ray Diffraction 2.4435 2.5723 -- 144 2814 0.1643 0.2188 -- 100.0
X Ray Diffraction 2.5723 2.7334 -- 144 2841 0.167 0.2305 -- 100.0
X Ray Diffraction 2.7334 2.9444 -- 144 2810 0.1656 0.2186 -- 100.0
X Ray Diffraction 2.9444 3.2406 -- 144 2845 0.1636 0.2044 -- 100.0
X Ray Diffraction 3.2406 3.7092 -- 147 2873 0.1409 0.1738 -- 100.0
X Ray Diffraction 3.7092 4.672 -- 147 2888 0.1306 0.1576 -- 100.0
X Ray Diffraction 4.672 39.4613 -- 149 2928 0.1506 0.1874 -- 98.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.008
f_chiral_restr 0.191
f_dihedral_angle_d 21.132
f_angle_d 2.183
f_bond_d 0.018
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2924
Nucleic Acid Atoms 592
Heterogen Atoms 58
Solvent Atoms 361

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
PHASER model building
ADSC version: Quantum data collection