X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.2
Temperature 289.0
Details 0.1 M disodium hydrogen phosphate citric acid pH 4.2, 40 %(w/v) PEG300, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 72.71 α = 90
b = 86.9 β = 121.58
c = 55.26 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2012-04-15
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97921 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
1.7 50 99.3 -- 0.09 -- 3.9 31922 31922 0.0 0.0 14.7
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)
1.7 1.73 98.2 -- 0.498 3.0 2.8 1594

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 1.7 27.683 0.0 0.0 30859 30859 1564 95.92 0.169 0.169 0.168 0.195 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 1.7001 1.755 2046 110 1936 0.2113 0.2589 -- 71.0
X Ray Diffraction 1.755 1.8177 2638 115 2523 0.192 0.2614 -- 91.0
X Ray Diffraction 1.8177 1.8905 2883 141 2742 0.1809 0.1986 -- 98.0
X Ray Diffraction 1.8905 1.9765 2853 161 2692 0.1693 0.195 -- 99.0
X Ray Diffraction 1.9765 2.0807 2899 139 2760 0.1606 0.1805 -- 99.0
X Ray Diffraction 2.0807 2.211 2895 151 2744 0.1585 0.1827 -- 99.0
X Ray Diffraction 2.211 2.3816 2911 135 2776 0.1632 0.1914 -- 100.0
X Ray Diffraction 2.3816 2.6211 2904 142 2762 0.1734 0.2334 -- 100.0
X Ray Diffraction 2.6211 3.0 2934 160 2774 0.1802 0.2187 -- 100.0
X Ray Diffraction 3.0 3.7781 2944 163 2781 0.1676 0.2004 -- 100.0
X Ray Diffraction 3.7781 27.6862 2952 147 2805 0.154 0.156 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model mixed
Mean Isotropic B 24.2
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.1
f_dihedral_angle_d 18.058
f_angle_d 1.325
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1976
Nucleic Acid Atoms 0
Heterogen Atoms 66
Solvent Atoms 210

Software

Computing
Computing Package Purpose
SBCCOLLECT, HKL3000 Data Collection
HKL-3000 Data Reduction (intensity integration)
HKL-3000 Data Reduction (data scaling)
HKL3000, SHELXS,MLPHARE,Arp/Warp Structure Solution
PHENIX (phenix.refine: 1.8.1_1161) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1161) refinement
Arp/Warp model building
MLPHARE model building
SHELXS model building
HKL3000 model building
HKL3000 data collection
SBCCOLLECT data collection