X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 293.0
Details 6% v/v Tacsimate pH 6.0, 0.1 M MES monohydrate pH 6.0, 25% w/v Polyethylene glycol 4000 , VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.26 α = 90
b = 81.94 β = 105.46
c = 73.44 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 RAYONIX MX225HE -- 2011-06-03
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 SPRING-8 BL44XU

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 30 96.4 -- 0.086 -- 4.0 44590 44590 0.0 0.0 --
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)
2.0 2.07 91.0 -- 0.468 2.36 3.2 4176

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 2.004 29.799 -- 0.0 44562 44562 3468 96.25 0.1902 0.1902 0.1885 0.2106 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 2.0037 2.0311 -- 108 1498 0.2804 0.3203 -- 87.0
X Ray Diffraction 2.0311 2.0602 -- 125 1528 0.2711 0.3323 -- 91.0
X Ray Diffraction 2.0602 2.0909 -- 147 1542 0.2769 0.283 -- 91.0
X Ray Diffraction 2.0909 2.1236 -- 139 1536 0.2516 0.3035 -- 92.0
X Ray Diffraction 2.1236 2.1584 -- 132 1639 0.2452 0.3006 -- 93.0
X Ray Diffraction 2.1584 2.1956 -- 126 1571 0.2367 0.2824 -- 95.0
X Ray Diffraction 2.1956 2.2355 -- 142 1628 0.2215 0.2533 -- 95.0
X Ray Diffraction 2.2355 2.2785 -- 131 1613 0.2226 0.2328 -- 95.0
X Ray Diffraction 2.2785 2.325 -- 141 1642 0.2093 0.2675 -- 97.0
X Ray Diffraction 2.325 2.3755 -- 124 1637 0.1998 0.2667 -- 96.0
X Ray Diffraction 2.3755 2.4307 -- 143 1661 0.2062 0.2466 -- 97.0
X Ray Diffraction 2.4307 2.4915 -- 129 1661 0.1978 0.2467 -- 97.0
X Ray Diffraction 2.4915 2.5588 -- 130 1700 0.1864 0.214 -- 98.0
X Ray Diffraction 2.5588 2.6341 -- 139 1655 0.1973 0.2229 -- 97.0
X Ray Diffraction 2.6341 2.719 -- 145 1647 0.2031 0.2575 -- 98.0
X Ray Diffraction 2.719 2.8161 -- 144 1694 0.1903 0.1957 -- 98.0
X Ray Diffraction 2.8161 2.9288 -- 148 1645 0.1853 0.2139 -- 98.0
X Ray Diffraction 2.9288 3.062 -- 147 1694 0.1867 0.2186 -- 98.0
X Ray Diffraction 3.062 3.2232 -- 147 1677 0.1851 0.1928 -- 99.0
X Ray Diffraction 3.2232 3.4249 -- 147 1692 0.1786 0.2066 -- 99.0
X Ray Diffraction 3.4249 3.6889 -- 149 1680 0.1584 0.1691 -- 99.0
X Ray Diffraction 3.6889 4.0593 -- 125 1718 0.1603 0.1699 -- 99.0
X Ray Diffraction 4.0593 4.6448 -- 158 1694 0.1474 0.1507 -- 99.0
X Ray Diffraction 4.6448 5.8447 -- 166 1694 0.1687 0.1951 -- 99.0
X Ray Diffraction 5.8447 29.8027 -- 136 1748 0.1857 0.1816 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_chiral_restr 0.046
f_dihedral_angle_d 18.478
f_angle_d 0.687
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3164
Nucleic Acid Atoms 720
Heterogen Atoms 4
Solvent Atoms 423

Software

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