X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.2
Temperature 295.0
Details Crystallization condition 20% PEG 8K, 0.1M phosphate-citrate pH 4.2, 0.2M NaCl

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 39.09 α = 90
b = 60.83 β = 92.57
c = 54 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
PIXEL DECTRIS PILATUS3 6M -- 2015-05-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALBA BEAMLINE XALOC 1.149 ALBA XALOC

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
1.15 39.05 95.61 0.024 -- -- 1.6 -- 85844 -- -- 10.26
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)
1.149 1.19 86.82 0.28 -- 2.14 1.4 --

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 1.149 39.054 -- 1.34 -- 85835 4277 95.6 -- 0.1391 0.1378 0.1646 --
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 1.149 1.162 -- 134 2046 0.2486 0.2618 -- 74.0
X Ray Diffraction 1.162 1.1757 -- 148 2585 0.218 0.2266 -- 92.0
X Ray Diffraction 1.1757 1.1901 -- 165 2678 0.2153 0.226 -- 94.0
X Ray Diffraction 1.1901 1.2051 -- 144 2653 0.1964 0.2479 -- 94.0
X Ray Diffraction 1.2051 1.221 -- 156 2699 0.1899 0.2272 -- 95.0
X Ray Diffraction 1.221 1.2377 -- 122 2673 0.1823 0.1816 -- 95.0
X Ray Diffraction 1.2377 1.2554 -- 145 2752 0.1696 0.2083 -- 96.0
X Ray Diffraction 1.2554 1.2741 -- 155 2686 0.1646 0.2248 -- 96.0
X Ray Diffraction 1.2741 1.294 -- 145 2727 0.1621 0.1784 -- 96.0
X Ray Diffraction 1.294 1.3153 -- 132 2778 0.1552 0.1654 -- 97.0
X Ray Diffraction 1.3153 1.3379 -- 142 2739 0.1539 0.1799 -- 97.0
X Ray Diffraction 1.3379 1.3623 -- 129 2753 0.1509 0.2003 -- 97.0
X Ray Diffraction 1.3623 1.3885 -- 141 2742 0.1494 0.1814 -- 96.0
X Ray Diffraction 1.3885 1.4168 -- 151 2730 0.1419 0.1839 -- 96.0
X Ray Diffraction 1.4168 1.4476 -- 130 2786 0.1332 0.1745 -- 97.0
X Ray Diffraction 1.4476 1.4813 -- 140 2702 0.1282 0.1567 -- 96.0
X Ray Diffraction 1.4813 1.5183 -- 162 2730 0.124 0.1525 -- 97.0
X Ray Diffraction 1.5183 1.5594 -- 131 2779 0.1144 0.1553 -- 98.0
X Ray Diffraction 1.5594 1.6053 -- 122 2780 0.1151 0.1526 -- 97.0
X Ray Diffraction 1.6053 1.6571 -- 128 2791 0.1138 0.1702 -- 98.0
X Ray Diffraction 1.6571 1.7163 -- 161 2796 0.1212 0.1622 -- 98.0
X Ray Diffraction 1.7163 1.785 -- 146 2735 0.1187 0.145 -- 97.0
X Ray Diffraction 1.785 1.8663 -- 135 2820 0.1174 0.138 -- 98.0
X Ray Diffraction 1.8663 1.9647 -- 141 2777 0.1187 0.1321 -- 98.0
X Ray Diffraction 1.9647 2.0878 -- 173 2756 0.1171 0.142 -- 98.0
X Ray Diffraction 2.0878 2.2489 -- 130 2791 0.1207 0.145 -- 97.0
X Ray Diffraction 2.2489 2.4752 -- 156 2752 0.1292 0.1496 -- 96.0
X Ray Diffraction 2.4752 2.8333 -- 141 2769 0.1401 0.1489 -- 97.0
X Ray Diffraction 2.8333 3.5693 -- 126 2767 0.1371 0.1587 -- 96.0
X Ray Diffraction 3.5693 39.0761 -- 146 2786 0.1494 0.1804 -- 96.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_bond_d 0.008
f_dihedral_angle_d 14.231
f_chiral_restr 0.098
f_angle_d 1.041
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2250
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 325

Software

Software
Software Name Purpose
PHENIX refinement version: (1.11.1_2575: ???)
XDS data reduction
XSCALE data scaling
PHENIX phasing