X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 0.1 mM Tris, 20% ETHANOL, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 139.49 α = 90
b = 139.49 β = 90
c = 43.17 γ = 120
Symmetry
Space Group P 32

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 197
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2000-07-01
Diffraction Radiation
Monochromator Protocol
SI mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-E 0.97919 APS 24-ID-E

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
2.9 30 99.0 -- 0.072 -- 9.3 -- 20470 -3.0 -3.0 --
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)
2.9 3.0 100.0 0.722 -- 3.4 9.5 2035

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 2.906 27.127 -- 1.97 -- 20410 2007 98.78 -- 0.2115 0.2071 0.2519 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 2.9062 2.9788 -- 148 1317 0.3789 0.4218 -- 99.0
X Ray Diffraction 2.9788 3.0592 -- 150 1337 0.3047 0.3179 -- 100.0
X Ray Diffraction 3.0592 3.1491 -- 145 1292 0.3074 0.4127 -- 99.0
X Ray Diffraction 3.1491 3.2506 -- 140 1319 0.2957 0.3432 -- 100.0
X Ray Diffraction 3.2506 3.3665 -- 150 1349 0.2615 0.3646 -- 100.0
X Ray Diffraction 3.3665 3.5011 -- 143 1326 0.2026 0.2534 -- 100.0
X Ray Diffraction 3.5011 3.6601 -- 145 1355 0.2034 0.2726 -- 100.0
X Ray Diffraction 3.6601 3.8525 -- 144 1313 0.1979 0.2361 -- 100.0
X Ray Diffraction 3.8525 4.0931 -- 152 1322 0.1839 0.2332 -- 100.0
X Ray Diffraction 4.0931 4.4079 -- 139 1325 0.1636 0.1804 -- 100.0
X Ray Diffraction 4.4079 4.8492 -- 146 1347 0.1561 0.2112 -- 100.0
X Ray Diffraction 4.8492 5.5457 -- 144 1310 0.1942 0.1938 -- 99.0
X Ray Diffraction 5.5457 6.9674 -- 135 1335 0.2114 0.2891 -- 100.0
X Ray Diffraction 6.9674 27.1277 -- 126 1156 0.2185 0.2618 -- 87.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 6.4025
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 6.4025
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -12.8049
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.009
f_plane_restr 0.006
f_chiral_restr 0.089
f_dihedral_angle_d 21.399
f_angle_d 1.353
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2425
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Software
Software Name Purpose
MAR345dtb data collection
PHENIX model building
PHENIX refinement version: (phenix.refine: 1.7.1_743)
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing