X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.9
Temperature 292.0
Details 20% PEG 3350, 0.2M sodium iodide, 10% ethylene glycol, 5% polyvinyl pyrrolidone K15, pH 6.9, VAPOR DIFFUSION, SITTING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 150.5 α = 90
b = 150.5 β = 90
c = 234.1 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 MAR CCD 165 mm -- 2005-06-01
Diffraction Radiation
Monochromator Protocol
YALE MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM30A 0.98 ESRF BM30A

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
2.8 20 98.9 -- 0.122 -- 4.1 76055 75205 0.0 -3.0 15.1
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)
2.8 3.0 96.2 0.437 -- 3.85 3.4 --

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 2.803 19.833 -- 2.0 75201 75201 3761 99.58 -- 0.197 0.1944 0.2471 --
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 2.8034 2.8388 -- 125 2374 0.2624 0.3196 -- 91.0
X Ray Diffraction 2.8388 2.876 -- 137 2594 0.2489 0.319 -- 100.0
X Ray Diffraction 2.876 2.9153 -- 139 2645 0.2405 0.3203 -- 100.0
X Ray Diffraction 2.9153 2.9568 -- 139 2646 0.2345 0.3195 -- 100.0
X Ray Diffraction 2.9568 3.0008 -- 139 2643 0.2349 0.2602 -- 100.0
X Ray Diffraction 3.0008 3.0475 -- 137 2590 0.2351 0.2912 -- 100.0
X Ray Diffraction 3.0475 3.0973 -- 139 2637 0.2316 0.322 -- 100.0
X Ray Diffraction 3.0973 3.1505 -- 138 2635 0.2316 0.2936 -- 100.0
X Ray Diffraction 3.1505 3.2076 -- 139 2643 0.2283 0.3086 -- 100.0
X Ray Diffraction 3.2076 3.269 -- 140 2648 0.2234 0.2953 -- 100.0
X Ray Diffraction 3.269 3.3354 -- 136 2599 0.2145 0.2805 -- 100.0
X Ray Diffraction 3.3354 3.4076 -- 139 2623 0.21 0.2835 -- 100.0
X Ray Diffraction 3.4076 3.4865 -- 139 2652 0.2077 0.2533 -- 100.0
X Ray Diffraction 3.4865 3.5732 -- 142 2687 0.1988 0.249 -- 100.0
X Ray Diffraction 3.5732 3.6692 -- 137 2614 0.1948 0.2621 -- 99.0
X Ray Diffraction 3.6692 3.7764 -- 138 2618 0.1857 0.2325 -- 100.0
X Ray Diffraction 3.7764 3.8974 -- 139 2636 0.1761 0.2359 -- 100.0
X Ray Diffraction 3.8974 4.0356 -- 139 2642 0.1775 0.2243 -- 100.0
X Ray Diffraction 4.0356 4.1957 -- 140 2671 0.1604 0.2149 -- 100.0
X Ray Diffraction 4.1957 4.3847 -- 140 2658 0.1539 0.2233 -- 100.0
X Ray Diffraction 4.3847 4.6132 -- 140 2665 0.1504 0.2007 -- 100.0
X Ray Diffraction 4.6132 4.8981 -- 141 2665 0.1515 0.1849 -- 100.0
X Ray Diffraction 4.8981 5.2697 -- 141 2680 0.1705 0.2068 -- 100.0
X Ray Diffraction 5.2697 5.788 -- 142 2709 0.1781 0.2265 -- 100.0
X Ray Diffraction 5.788 6.5984 -- 142 2697 0.1932 0.2429 -- 100.0
X Ray Diffraction 6.5984 8.2139 -- 145 2743 0.1833 0.1951 -- 100.0
X Ray Diffraction 8.2139 19.8331 -- 149 2826 0.1729 0.1676 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -9.7807
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -9.7807
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -9.5577
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_chiral_restr 0.049
f_dihedral_angle_d 12.357
f_angle_d 0.656
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 23148
Nucleic Acid Atoms 0
Heterogen Atoms 60
Solvent Atoms 71

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
MOLREP Structure Solution
PHENIX (phenix.refine: 1.8_1069) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
MOLREP model building
ADSC version: Quantum data collection