X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 298.0
Details 0.2 M KSCN, 20% PEG3350, vapor diffusion, hanging drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.96 α = 90
b = 107.79 β = 90
c = 72.88 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2012-06-15
Diffraction Radiation
Monochromator Protocol
Si111 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
1.3 50 99.8 0.054 -- -- 5.8 -- 73370 -- -- --
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)
1.3 1.32 98.9 0.614 -- -- 4.3 3604

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 1.3 26.294 -- 1.34 -- 73351 3698 99.55 -- 0.1222 0.1206 0.1528 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 1.3 1.3165 -- 119 2412 0.2334 0.2804 -- 91.0
X Ray Diffraction 1.3165 1.3345 -- 157 2635 0.181 0.2234 -- 99.0
X Ray Diffraction 1.3345 1.3535 -- 153 2647 0.1455 0.2062 -- 100.0
X Ray Diffraction 1.3535 1.3738 -- 141 2676 0.129 0.1838 -- 100.0
X Ray Diffraction 1.3738 1.3952 -- 139 2654 0.1245 0.1741 -- 100.0
X Ray Diffraction 1.3952 1.4181 -- 136 2675 0.121 0.1841 -- 100.0
X Ray Diffraction 1.4181 1.4425 -- 116 2713 0.1175 0.1678 -- 100.0
X Ray Diffraction 1.4425 1.4688 -- 126 2671 0.1141 0.1534 -- 100.0
X Ray Diffraction 1.4688 1.497 -- 136 2671 0.1138 0.1565 -- 100.0
X Ray Diffraction 1.497 1.5276 -- 132 2679 0.094 0.1365 -- 100.0
X Ray Diffraction 1.5276 1.5608 -- 138 2671 0.0906 0.1469 -- 100.0
X Ray Diffraction 1.5608 1.5971 -- 143 2677 0.0909 0.1411 -- 100.0
X Ray Diffraction 1.5971 1.637 -- 126 2703 0.0905 0.1399 -- 100.0
X Ray Diffraction 1.637 1.6813 -- 167 2646 0.0929 0.1342 -- 100.0
X Ray Diffraction 1.6813 1.7307 -- 150 2696 0.0936 0.1694 -- 100.0
X Ray Diffraction 1.7307 1.7866 -- 146 2678 0.0936 0.1319 -- 100.0
X Ray Diffraction 1.7866 1.8504 -- 163 2657 0.1001 0.1527 -- 100.0
X Ray Diffraction 1.8504 1.9245 -- 141 2677 0.1012 0.1442 -- 100.0
X Ray Diffraction 1.9245 2.0121 -- 136 2704 0.1018 0.1427 -- 100.0
X Ray Diffraction 2.0121 2.1181 -- 124 2711 0.1 0.1456 -- 100.0
X Ray Diffraction 2.1181 2.2507 -- 142 2711 0.1008 0.135 -- 100.0
X Ray Diffraction 2.2507 2.4244 -- 160 2687 0.1142 0.132 -- 100.0
X Ray Diffraction 2.4244 2.6682 -- 152 2708 0.1253 0.1481 -- 100.0
X Ray Diffraction 2.6682 3.0537 -- 150 2724 0.1341 0.1543 -- 100.0
X Ray Diffraction 3.0537 3.8455 -- 145 2762 0.1342 0.1545 -- 100.0
X Ray Diffraction 3.8455 26.294 -- 160 2808 0.1537 0.1604 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.3787
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 12.757
f_plane_restr 0.007
f_chiral_restr 0.075
f_angle_d 1.295
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2456
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 350

Software

Computing
Computing Package Purpose
SBCCollect Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL Data Reduction (data scaling)
PHENIX Structure Solution
PHENIX (phenix.refine: 1.8_1069) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
phenix refinement
HKL data reduction