X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details 0.1 M HEPES, 0.2 M MgCl2, 30% PEG300, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 85.31 α = 90
b = 98.28 β = 90
c = 130.03 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 -- 2013-03-07
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
2.26 50 100.0 -- -- -- -- 25950 25950 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)
2.26 2.38 100.0 -- -- -- -- --

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 2.26 42.656 -- 1.34 25950 25950 2000 99.94 -- 0.1757 0.1721 0.2175 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 2.2601 2.3166 -- 140 1677 0.2452 0.3307 -- 100.0
X Ray Diffraction 2.3166 2.3793 -- 141 1681 0.2249 0.2644 -- 100.0
X Ray Diffraction 2.3793 2.4493 -- 141 1699 0.2023 0.2606 -- 100.0
X Ray Diffraction 2.4493 2.5283 -- 141 1691 0.1881 0.2837 -- 100.0
X Ray Diffraction 2.5283 2.6187 -- 141 1684 0.1848 0.2817 -- 100.0
X Ray Diffraction 2.6187 2.7235 -- 141 1692 0.1962 0.2383 -- 100.0
X Ray Diffraction 2.7235 2.8474 -- 141 1689 0.195 0.2681 -- 100.0
X Ray Diffraction 2.8474 2.9975 -- 142 1697 0.2 0.2432 -- 100.0
X Ray Diffraction 2.9975 3.1853 -- 144 1725 0.1995 0.2517 -- 100.0
X Ray Diffraction 3.1853 3.4311 -- 143 1708 0.1692 0.2076 -- 100.0
X Ray Diffraction 3.4311 3.7762 -- 142 1709 0.1565 0.1932 -- 100.0
X Ray Diffraction 3.7762 4.3222 -- 145 1734 0.1507 0.1768 -- 100.0
X Ray Diffraction 4.3222 5.4437 -- 146 1753 0.1387 0.1984 -- 100.0
X Ray Diffraction 5.4437 42.6631 -- 152 1811 0.1753 0.204 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.149
f_dihedral_angle_d 20.378
f_angle_d 1.933
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2929
Nucleic Acid Atoms 589
Heterogen Atoms 51
Solvent Atoms 165

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