X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 298.0
Details 100 mM HEPES, 50 mM Ammonium Sulfate, 7.5% PEG 3350, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.28 α = 90
b = 47.28 β = 90
c = 291.97 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2009-08-18
Diffraction Radiation
Monochromator Protocol
Double crystal, Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.1 0.999974 ALS 8.2.1

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
2.6 48.66 99.9 -- -- -- -- -- 11112 3.0 3.0 --
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)
2.6 2.76 99.7 -- -- -- -- --

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 2.6 46.672 -- 1.35 11115 11112 537 99.97 -- 0.2543 0.2521 0.2986 --
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 2.6 2.8617 -- 137 2535 0.3668 0.4417 -- 100.0
X Ray Diffraction 2.8617 3.2757 -- 123 2579 0.3015 0.3525 -- 100.0
X Ray Diffraction 3.2757 4.1266 -- 144 2614 0.2446 0.311 -- 100.0
X Ray Diffraction 4.1266 46.6795 -- 133 2847 0.2177 0.2442 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 2.3931
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.3931
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.7862
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.013
f_angle_d 0.66
f_plane_restr 0.003
f_chiral_restr 0.043
f_dihedral_angle_d 10.058
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2364
Nucleic Acid Atoms 0
Heterogen Atoms 17
Solvent Atoms 42

Software

Software
Software Name Purpose
XSCALE data scaling
PHENIX refinement version: 1.7.1_743
PDB_EXTRACT data extraction version: 3.11
Blu-Ice data collection
XDS data reduction
PHENIX phasing