X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 292.0
Details 0.1 M ADA, 1.0 M AMMONIUM SULFATE, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 55.8 α = 90
b = 55.8 β = 90
c = 99.96 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX-225 -- 2011-04-27
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL MONOCHROMATOR, SI -111 CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 0.91800 BESSY 14.2

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
1.34 34.75 97.8 0.043 -- -- 10.87 39077 38199 -- -3.0 14.62
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)
1.34 1.44 88.3 0.872 -- 1.91 -- --

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 1.34 34.75 -- -- 38199 38196 1000 97.8 0.1238 0.1238 0.1229 0.1572 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 1.34 1.42 -- 125 4629 0.2049 0.2561 -- 86.0
X Ray Diffraction 1.42 1.5 -- 144 5367 0.1495 0.2204 -- 99.0
X Ray Diffraction 1.5 1.62 -- 146 5420 0.1048 0.1449 -- 100.0
X Ray Diffraction 1.62 1.78 -- 146 5438 0.0969 0.1414 -- 100.0
X Ray Diffraction 1.78 2.04 -- 146 5418 0.0921 0.13 -- 100.0
X Ray Diffraction 2.04 2.57 -- 146 5433 0.1224 0.1373 -- 100.0
X Ray Diffraction 2.57 34.75 -- 147 5491 0.1307 0.1655 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.1523
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.009
f_chiral_restr 0.111
f_dihedral_angle_d 14.992
f_bond_d 0.019
f_angle_d 1.651
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1218
Nucleic Acid Atoms 0
Heterogen Atoms 55
Solvent Atoms 193

Software

Software
Software Name Purpose
XSCALE data scaling
PHENIX refinement version: 1.8.4_1496
PDB_EXTRACT data extraction version: 3.14
MxCuBE data collection
XDS data reduction
PHASER phasing