X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.6
Temperature 289.0
Details 10.7% PEG 3000, 50mM Tris pH7.6, 8.6% PEG2000 MME, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 48.24 α = 90
b = 48.24 β = 90
c = 147.63 γ = 90
Symmetry
Space Group P 43

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2011-10-10
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97924 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
1.6 50 99.1 -- 0.059 -- 7.5 43924 43924 0.0 0.0 23.1
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)
1.6 1.63 93.4 -- 0.543 2.6 5.5 2059

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 1.6 34.449 -- 0.0 43857 43857 2229 99.1 0.187 0.187 0.184 0.201 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 1.6007 1.6355 2599 154 2445 0.2916 0.2881 -- 89.0
X Ray Diffraction 1.6355 1.6735 2727 141 2586 0.2911 0.3107 -- 93.0
X Ray Diffraction 1.6735 1.7153 2762 135 2627 0.2755 0.3122 -- 95.0
X Ray Diffraction 1.7153 1.7617 2693 149 2544 0.278 0.2793 -- 94.0
X Ray Diffraction 1.7617 1.8135 2777 138 2639 0.2665 0.2743 -- 95.0
X Ray Diffraction 1.8135 1.872 2734 152 2582 0.2551 0.2567 -- 94.0
X Ray Diffraction 1.872 1.9388 2761 164 2597 0.2372 0.263 -- 94.0
X Ray Diffraction 1.9388 2.0164 2763 115 2648 0.2279 0.2345 -- 96.0
X Ray Diffraction 2.0164 2.1081 2763 132 2631 0.2153 0.2069 -- 95.0
X Ray Diffraction 2.1081 2.2191 2733 143 2590 0.2055 0.212 -- 95.0
X Ray Diffraction 2.2191 2.3579 2787 136 2651 0.2137 0.223 -- 95.0
X Ray Diffraction 2.3579 2.5396 2786 137 2649 0.2188 0.2179 -- 95.0
X Ray Diffraction 2.5396 2.7946 2734 143 2591 0.1951 0.1885 -- 95.0
X Ray Diffraction 2.7946 3.1975 2772 128 2644 0.1732 0.2225 -- 95.0
X Ray Diffraction 3.1975 4.0231 2780 128 2652 0.1449 0.1615 -- 95.0
X Ray Diffraction 4.0231 19.9569 2660 120 2540 0.1395 0.1606 -- 91.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model mixed
Mean Isotropic B 33.5
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.067
f_dihedral_angle_d 15.739
f_angle_d 0.949
f_bond_d 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2351
Nucleic Acid Atoms 0
Heterogen Atoms 34
Solvent Atoms 197

Software

Computing
Computing Package Purpose
SBCcollect, HKL-3000 Data Collection
HKL-3000 Data Reduction (intensity integration)
HKL-3000 Data Reduction (data scaling)
HKL-3000, SHELX, RESOLVE, BUCCUNEER Structure Solution
PHENIX (phenix.refine: dev_1227) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: dev_1227) refinement
BUCCUNEER model building
RESOLVE model building
SHELX model building
HKL-3000 model building
HKL-3000 data collection
SBCcollect data collection