X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.5
Temperature 293.0
Details 35% (v/v) Pentaerythritol propoxylate (5/4 PO/OH), 0.05 M HEPES, 0.2 M Potassium chloride, pH 7.5, vapor diffusion, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.3 α = 90
b = 93.95 β = 90
c = 117.73 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2013-04-13
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID 1.0000 APS 17-ID

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
1.7 73.43 98.8 0.066 -- -- 4.0 86339 86339 0.0 -3.0 18.22
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)
1.7 1.73 99.9 0.717 -- 1.8 4.1 4338

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 1.7 46.977 -- 0.52 -- 82781 4149 94.6 -- 0.1809 0.1794 0.2085 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 1.7 1.7193 -- 151 2516 0.2401 0.2662 -- 94.0
X Ray Diffraction 1.7193 1.7396 -- 146 2602 0.2313 0.2475 -- 95.0
X Ray Diffraction 1.7396 1.7608 -- 147 2553 0.2259 0.2895 -- 94.0
X Ray Diffraction 1.7608 1.7831 -- 131 2620 0.2218 0.268 -- 94.0
X Ray Diffraction 1.7831 1.8065 -- 139 2553 0.2102 0.2398 -- 94.0
X Ray Diffraction 1.8065 1.8313 -- 129 2563 0.2102 0.2724 -- 93.0
X Ray Diffraction 1.8313 1.8574 -- 143 2535 0.1993 0.1962 -- 94.0
X Ray Diffraction 1.8574 1.8852 -- 136 2544 0.2023 0.2148 -- 92.0
X Ray Diffraction 1.8852 1.9146 -- 112 2502 0.207 0.2511 -- 90.0
X Ray Diffraction 1.9146 1.946 -- 128 2318 0.2176 0.2699 -- 86.0
X Ray Diffraction 1.946 1.9796 -- 121 2461 0.2183 0.2553 -- 88.0
X Ray Diffraction 1.9796 2.0156 -- 158 2584 0.185 0.214 -- 95.0
X Ray Diffraction 2.0156 2.0543 -- 132 2615 0.175 0.2264 -- 94.0
X Ray Diffraction 2.0543 2.0963 -- 120 2547 0.183 0.2227 -- 92.0
X Ray Diffraction 2.0963 2.1418 -- 142 2689 0.1747 0.2263 -- 98.0
X Ray Diffraction 2.1418 2.1917 -- 124 2745 0.1737 0.1952 -- 99.0
X Ray Diffraction 2.1917 2.2465 -- 141 2749 0.1646 0.2064 -- 99.0
X Ray Diffraction 2.2465 2.3072 -- 139 2769 0.1646 0.2154 -- 100.0
X Ray Diffraction 2.3072 2.3751 -- 145 2729 0.1649 0.1909 -- 99.0
X Ray Diffraction 2.3751 2.4518 -- 142 2679 0.173 0.2203 -- 97.0
X Ray Diffraction 2.4518 2.5394 -- 136 2667 0.1914 0.2295 -- 96.0
X Ray Diffraction 2.5394 2.641 -- 163 2535 0.1895 0.2021 -- 92.0
X Ray Diffraction 2.641 2.7612 -- 118 2439 0.2009 0.2553 -- 88.0
X Ray Diffraction 2.7612 2.9068 -- 153 2667 0.186 0.2469 -- 96.0
X Ray Diffraction 2.9068 3.0889 -- 127 2717 0.1878 0.2022 -- 97.0
X Ray Diffraction 3.0889 3.3273 -- 141 2764 0.1785 0.2168 -- 99.0
X Ray Diffraction 3.3273 3.662 -- 146 2770 0.1712 0.1517 -- 98.0
X Ray Diffraction 3.662 4.1917 -- 140 2769 0.1505 0.1875 -- 97.0
X Ray Diffraction 4.1917 5.2799 -- 147 2523 0.1418 0.1523 -- 89.0
X Ray Diffraction 5.2799 46.9949 -- 152 2908 0.1877 0.2266 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.3545
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.078
f_plane_restr 0.006
f_dihedral_angle_d 13.135
f_bond_d 0.009
f_angle_d 1.108
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5290
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 400

Software

Software
Software Name Purpose
SCALA data scaling version: 0.1.29
PHASER phasing
PHENIX refinement version: dev_1356
PDB_EXTRACT data extraction version: 3.11
JDirector data collection
XDS data reduction