X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 277.0
Details 1.3 M lithium sulfate, 20 mM Tris sulfate, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.01 α = 90
b = 66.01 β = 90
c = 79.75 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 Double Crystal Si(111) 2009-10-22
Diffraction Radiation
Monochromator Protocol
KOHZU: Double Crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.11588 ALS 8.3.1

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
1.55 57.17 97.7 0.1 0.1 -- 10.5 29718 29042 0.0 -3.0 13.0
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)
1.55 1.58 100.0 0.457 0.457 4.676 5.8 1461

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 1.55 33.008 -- 1.34 29718 28909 1482 97.4 -- 0.1382 0.136 0.202 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 1.55 1.6061 2804 138 2804 0.174 0.2515 -- 95.0
X Ray Diffraction 1.6061 1.6704 2763 146 2763 0.1566 0.2546 -- 95.0
X Ray Diffraction 1.6704 1.7463 2768 150 2768 0.1609 0.1797 -- 95.0
X Ray Diffraction 1.7463 1.8383 2777 162 2777 0.1441 0.1864 -- 94.0
X Ray Diffraction 1.8383 1.9534 2747 144 2747 0.1617 0.2395 -- 94.0
X Ray Diffraction 1.9534 2.104 2769 164 2769 0.1376 0.2015 -- 94.0
X Ray Diffraction 2.104 2.3154 2399 107 2399 0.1395 0.2384 -- 81.0
X Ray Diffraction 2.3154 2.6497 2823 164 2823 0.1383 0.2005 -- 94.0
X Ray Diffraction 2.6497 3.3353 2826 166 2826 0.1254 0.1835 -- 94.0
X Ray Diffraction 3.3353 18.8267 2734 132 2734 0.106 0.177 -- 87.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model mixed
Anisotropic B[1][1] 0.8581
Anisotropic B[1][2] 0.8581
Anisotropic B[1][3] -1.7161
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.004
f_chiral_restr 0.064
f_angle_d 0.905
f_dihedral_angle_d 11.376
f_plane_restr 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1382
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 448

Software

Software
Software Name Purpose
Blu-Ice data collection
PHENIX model building version: (phenix.refine: dev_328)
PHENIX refinement version: (phenix.refine: dev_328)
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing version: dev_328