X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.9
Temperature 277.0
Details MES-BIS-TRIS Mega8-Solution DTT EDTA LiCl Methanol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 52.07 α = 90
b = 71.19 β = 90
c = 97.17 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 PILATUS3 6M Silicon, active surface 2016-09-18
Diffraction Radiation
Monochromator Protocol
Si-111 crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 0.918409 BESSY 14.1

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
1.38 50 99.3 -- -- -- 5.72 -- 74698 -- -- --
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)
1.38 1.46 98.2 -- -- 4.38 5.79 --

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 1.38 48.586 -- 1.36 -- 74691 3735 99.33 -- 0.1311 0.1296 0.1598 --
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 1.3785 1.396 -- 128 2446 0.1736 0.2245 -- 93.0
X Ray Diffraction 1.396 1.4144 -- 136 2585 0.1529 0.205 -- 100.0
X Ray Diffraction 1.4144 1.4337 -- 137 2603 0.1448 0.1984 -- 100.0
X Ray Diffraction 1.4337 1.4542 -- 138 2608 0.1375 0.193 -- 100.0
X Ray Diffraction 1.4542 1.4759 -- 137 2612 0.1249 0.1777 -- 100.0
X Ray Diffraction 1.4759 1.499 -- 137 2596 0.1168 0.1681 -- 100.0
X Ray Diffraction 1.499 1.5236 -- 138 2622 0.1155 0.1605 -- 100.0
X Ray Diffraction 1.5236 1.5498 -- 137 2604 0.1111 0.1815 -- 100.0
X Ray Diffraction 1.5498 1.578 -- 139 2634 0.1101 0.1509 -- 100.0
X Ray Diffraction 1.578 1.6084 -- 135 2571 0.1049 0.1453 -- 100.0
X Ray Diffraction 1.6084 1.6412 -- 139 2639 0.1094 0.1622 -- 100.0
X Ray Diffraction 1.6412 1.6769 -- 137 2602 0.1119 0.1639 -- 99.0
X Ray Diffraction 1.6769 1.7159 -- 135 2581 0.1105 0.17 -- 99.0
X Ray Diffraction 1.7159 1.7588 -- 139 2632 0.1115 0.1748 -- 100.0
X Ray Diffraction 1.7588 1.8064 -- 139 2642 0.1171 0.1464 -- 100.0
X Ray Diffraction 1.8064 1.8595 -- 138 2617 0.1163 0.1574 -- 100.0
X Ray Diffraction 1.8595 1.9196 -- 139 2653 0.1209 0.1544 -- 100.0
X Ray Diffraction 1.9196 1.9882 -- 138 2612 0.1267 0.14 -- 100.0
X Ray Diffraction 1.9882 2.0678 -- 139 2634 0.1195 0.1776 -- 99.0
X Ray Diffraction 2.0678 2.1619 -- 139 2651 0.1212 0.1616 -- 99.0
X Ray Diffraction 2.1619 2.2759 -- 138 2609 0.118 0.1397 -- 99.0
X Ray Diffraction 2.2759 2.4184 -- 137 2606 0.119 0.1397 -- 98.0
X Ray Diffraction 2.4184 2.6052 -- 141 2675 0.1258 0.1527 -- 100.0
X Ray Diffraction 2.6052 2.8673 -- 141 2682 0.1391 0.1584 -- 100.0
X Ray Diffraction 2.8673 3.2821 -- 141 2693 0.1421 0.1735 -- 100.0
X Ray Diffraction 3.2821 4.1348 -- 143 2701 0.1331 0.1669 -- 99.0
X Ray Diffraction 4.1348 48.6162 -- 150 2846 0.1619 0.1422 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.009
f_chiral_restr 0.09
f_bond_d 0.011
f_dihedral_angle_d 21.827
f_angle_d 1.192
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2773
Nucleic Acid Atoms 0
Heterogen Atoms 32
Solvent Atoms 347

Software

Software
Software Name Purpose
PHENIX refinement version: (1.10.1_2155: ???)
XDS data reduction
XDS data scaling
PHASER phasing
Coot model building