X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 289.0
Details PEG 4000, 0.2M LiSO4, 0.1M Tris-HCl

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 97.73 α = 90
b = 97.73 β = 90
c = 80.84 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2009-12-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 0.9795 SSRL BL7-1

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
2.45 50 98.5 0.084 -- 19.459 5.4 -- 15774 -- -- 47.66
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)
2.45 2.54 89.3 0.541 -- -- 3.4 1415

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 2.457 42.32 -- 1.36 -- 15682 800 97.87 -- 0.1912 0.1881 0.2497 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 2.457 2.6103 -- 132 2224 0.2424 0.3371 -- 89.0
X Ray Diffraction 2.6103 2.8106 -- 133 2510 0.2204 0.28 -- 99.0
X Ray Diffraction 2.8106 3.0912 -- 132 2510 0.1969 0.266 -- 100.0
X Ray Diffraction 3.0912 3.5334 -- 137 2526 0.1927 0.2652 -- 100.0
X Ray Diffraction 3.5334 4.4323 -- 132 2540 0.1574 0.2181 -- 100.0
X Ray Diffraction 4.4323 14.94 -- 134 2572 0.1598 0.2072 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 49.673
Anisotropic B[1][1] -0.2387
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.2387
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.4774
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.086
f_chiral_restr 0.073
f_dihedral_angle_d 18.997
f_bond_d 0.009
f_plane_restr 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2218
Nucleic Acid Atoms 0
Heterogen Atoms 26
Solvent Atoms 58

Software

Software
Software Name Purpose
HKL-2000 data collection
SCALEPACK data scaling
PHASER phasing
PHENIX refinement version: (phenix.refine: dev_256)
PDB_EXTRACT data extraction version: 3.15
DENZO data reduction