X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 277.0
Details 0.20M Sodium Nitrate, 20% PEG 3350, 10% ethylene glycol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.62 α = 90
b = 43.83 β = 90
c = 78.46 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 EIGER X 16M -- 2015-10-16
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 1.000043 SLS X06SA

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
1.5 39.23 99.2 -- 0.031 12.944 6.5 21250 21250 -- -- --
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)
1.5 1.58 98.1 0.045 0.045 14.0 6.2 3002

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 1.5 39.229 -- 1.46 -- 21202 1051 98.83 -- 0.1466 0.1452 0.1754 --
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 1.4998 1.5681 -- 122 2456 0.1336 0.1702 -- 97.0
X Ray Diffraction 1.5681 1.6507 -- 129 2485 0.1299 0.1774 -- 100.0
X Ray Diffraction 1.6507 1.7542 -- 134 2492 0.14 0.1756 -- 100.0
X Ray Diffraction 1.7542 1.8896 -- 145 2460 0.1457 0.1758 -- 99.0
X Ray Diffraction 1.8896 2.0798 -- 135 2519 0.1461 0.1706 -- 100.0
X Ray Diffraction 2.0798 2.3807 -- 148 2507 0.1448 0.2201 -- 99.0
X Ray Diffraction 2.3807 2.9992 -- 110 2545 0.1589 0.1541 -- 98.0
X Ray Diffraction 2.9992 39.2429 -- 128 2687 0.1436 0.1632 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.5158
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.071
f_bond_d 0.006
f_dihedral_angle_d 16.168
f_plane_restr 0.006
f_angle_d 0.819
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1061
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 260

Software

Software
Software Name Purpose
SCALA data scaling version: 3.3.22
PHASER phasing version: 2.5.7
PHENIX refinement
PDB_EXTRACT data extraction version: 3.15
XDS data reduction
Coot model building