X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Temperature 295.15
Details pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.47 α = 90
b = 84.94 β = 106.75
c = 60.93 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 105
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RIGAKU SATURN 944+ -- 2012-07-15
Diffraction Radiation
Monochromator Protocol
VARIMAX HF SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF -- -- --

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 50 99.9 -- -- -- -- -- 36176 -- 2.4 --
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 99.4 -- -- -- -- --

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 2.0 31.79 -- 1.35 38922 36076 2846 99.6 -- 0.177 0.175 0.207 --
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 1.9949 2.0293 -- 132 1582 0.2238 0.2702 -- 94.0
X Ray Diffraction 2.0293 2.0662 -- 139 1628 0.2264 0.3279 -- 100.0
X Ray Diffraction 2.0662 2.106 -- 149 1681 0.2097 0.2612 -- 100.0
X Ray Diffraction 2.106 2.1489 -- 138 1652 0.1978 0.28 -- 100.0
X Ray Diffraction 2.1489 2.1956 -- 135 1659 0.1912 0.2413 -- 100.0
X Ray Diffraction 2.1956 2.2467 -- 146 1666 0.1984 0.2646 -- 100.0
X Ray Diffraction 2.2467 2.3029 -- 145 1638 0.1862 0.2516 -- 100.0
X Ray Diffraction 2.3029 2.3651 -- 166 1665 0.1918 0.2515 -- 100.0
X Ray Diffraction 2.3651 2.4347 -- 142 1651 0.1846 0.2305 -- 100.0
X Ray Diffraction 2.4347 2.5133 -- 130 1676 0.183 0.2181 -- 100.0
X Ray Diffraction 2.5133 2.603 -- 146 1643 0.1853 0.2537 -- 100.0
X Ray Diffraction 2.603 2.7072 -- 145 1657 0.188 0.2377 -- 100.0
X Ray Diffraction 2.7072 2.8303 -- 130 1681 0.1884 0.2158 -- 100.0
X Ray Diffraction 2.8303 2.9795 -- 121 1686 0.1987 0.2234 -- 100.0
X Ray Diffraction 2.9795 3.166 -- 160 1651 0.196 0.2537 -- 100.0
X Ray Diffraction 3.166 3.4102 -- 155 1668 0.185 0.2259 -- 100.0
X Ray Diffraction 3.4102 3.7529 -- 131 1673 0.1677 0.167 -- 100.0
X Ray Diffraction 3.7529 4.2948 -- 154 1659 0.1466 0.1545 -- 100.0
X Ray Diffraction 4.2948 5.4066 -- 144 1694 0.1454 0.1587 -- 100.0
X Ray Diffraction 5.4066 31.7976 -- 138 1720 0.141 0.1547 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.07
f_dihedral_angle_d 14.778
f_angle_d 0.951
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3937
Nucleic Acid Atoms 73
Heterogen Atoms 1
Solvent Atoms 364

Software

Computing
Computing Package Purpose
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
HKL-2000 data collection