X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.5
Temperature 298.0
Details 30% PEG 5000, 0.1 M sodium acetate, 20% glycerol, seeded

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.37 α = 90
b = 78.5 β = 96.23
c = 69.48 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 MARMOSAIC 300 mm CCD K-B mirrors 2014-12-04
Diffraction Radiation
Monochromator Protocol
K-B mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 1.03317 APS 23-ID-B

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
1.8 39.25 99.1 0.1257 -- -- 3.3 -- 36735 -- -- --
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)
1.799 1.9 96.46 1.418 -- 0.96 3.2 --

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 1.799 39.248 -- 1.33 -- 36685 1833 99.02 -- 0.1897 0.1875 0.2311 --
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 1.7995 1.8481 -- 135 2582 0.4306 0.4524 -- 96.0
X Ray Diffraction 1.8481 1.9025 -- 140 2673 0.3096 0.3477 -- 100.0
X Ray Diffraction 1.9025 1.9639 -- 143 2721 0.2665 0.295 -- 100.0
X Ray Diffraction 1.9639 2.0341 -- 140 2656 0.2248 0.2994 -- 100.0
X Ray Diffraction 2.0341 2.1155 -- 142 2699 0.2242 0.2638 -- 100.0
X Ray Diffraction 2.1155 2.2118 -- 143 2696 0.2024 0.2617 -- 100.0
X Ray Diffraction 2.2118 2.3284 -- 142 2702 0.1856 0.2454 -- 100.0
X Ray Diffraction 2.3284 2.4743 -- 142 2696 0.1963 0.271 -- 100.0
X Ray Diffraction 2.4743 2.6653 -- 141 2680 0.1915 0.2407 -- 100.0
X Ray Diffraction 2.6653 2.9334 -- 141 2693 0.1829 0.2493 -- 100.0
X Ray Diffraction 2.9334 3.3577 -- 142 2695 0.1695 0.2239 -- 99.0
X Ray Diffraction 3.3577 4.2295 -- 141 2663 0.1483 0.1887 -- 98.0
X Ray Diffraction 4.2295 39.2573 -- 141 2696 0.1546 0.1627 -- 97.0
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.92
f_plane_restr 0.006
f_bond_d 0.006
f_dihedral_angle_d 10.073
f_chiral_restr 0.058
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3326
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 243

Software

Software
Software Name Purpose
PHENIX refinement version: (1.15_3448: ???)
XSCALE data scaling
PDB_EXTRACT data extraction version: 3.24
XDS data reduction
PHASER phasing