X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5
Temperature 293.0
Details 0.1 M sodium citrate, 27.5% PEG 3000, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.5 α = 90
b = 151.43 β = 90
c = 42.76 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX-225 MIRRORS 2012-05-02
Diffraction Radiation
Monochromator Protocol
Si 111 DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 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
2.3 75.71 96.6 -- 0.118 -- 3.5 15371 15371 0.0 0.0 --
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)
2.3 2.42 96.8 0.449 0.449 1.7 3.5 2204

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 2.3 19.853 -- 1.36 15337 15331 772 95.25 -- 0.2317 0.2299 0.2692 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 2.3001 2.3821 -- 66 1451 0.3087 0.3417 -- 96.0
X Ray Diffraction 2.3821 2.4774 -- 83 1414 0.276 0.327 -- 96.0
X Ray Diffraction 2.4774 2.5899 -- 86 1431 0.2763 0.3318 -- 97.0
X Ray Diffraction 2.5899 2.7261 -- 81 1475 0.2686 0.2819 -- 96.0
X Ray Diffraction 2.7261 2.8964 -- 83 1427 0.2744 0.326 -- 96.0
X Ray Diffraction 2.8964 3.1192 -- 88 1450 0.2439 0.3038 -- 96.0
X Ray Diffraction 3.1192 3.4317 -- 62 1470 0.2279 0.269 -- 96.0
X Ray Diffraction 3.4317 3.9249 -- 89 1457 0.1996 0.2251 -- 95.0
X Ray Diffraction 3.9249 4.9324 -- 67 1484 0.1828 0.2262 -- 94.0
X Ray Diffraction 4.9324 19.8541 -- 67 1500 0.2058 0.2232 -- 90.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.3911
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.063
f_bond_d 0.005
f_dihedral_angle_d 15.914
f_angle_d 0.976
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2766
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 129

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 3.3.20
PHASER phasing version: 2.3.0
PHENIX refinement version: 1.8_1069
PDB_EXTRACT data extraction version: 3.11
MxCuBE data collection