X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 289.0
Details 0.2M sodium chloride, 0.1M Sodium cacodylate, 2M Ammonium sulfate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 91.33 α = 90
b = 91.33 β = 90
c = 74.19 γ = 120
Symmetry
Space Group P 3 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirror 2010-06-07
Diffraction Radiation
Monochromator Protocol
Si 111 crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97926 APS 19-ID

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
2.19 40 98.0 0.155 -- -- 9.2 18254 18254 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)
2.2 2.24 85.7 0.827 -- 1.5 7.8 796

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
SAD 2.193 39.548 0.0 0.02 16900 16900 874 90.34 0.1988 0.1988 0.1955 0.2601 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 2.1935 2.3309 -- 134 2138 0.2337 0.3282 -- 74.0
X Ray Diffraction 2.3309 2.5109 -- 137 2507 0.2182 0.2654 -- 86.0
X Ray Diffraction 2.5109 2.7635 -- 148 2662 0.2022 0.242 -- 91.0
X Ray Diffraction 2.7635 3.1632 -- 157 2773 0.1939 0.2798 -- 94.0
X Ray Diffraction 3.1632 3.9847 -- 147 2873 0.1707 0.2474 -- 97.0
X Ray Diffraction 3.9847 39.5543 -- 151 3073 0.1989 0.2536 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -10.6105
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -10.6105
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 21.221
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.007
f_angle_d 1.022
f_plane_restr 0.003
f_dihedral_angle_d 17.544
f_chiral_restr 0.068
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2497
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 46

Software

Software
Software Name Purpose
SBC-Collect data collection
SHELXD phasing
MLPHARE phasing
DM model building
RESOLVE model building
HKL-3000 phasing
PHENIX refinement version: (phenix.refine: 1.5_2)
HKL-3000 data reduction
HKL-3000 data scaling
DM phasing
RESOLVE phasing