X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details 21% PEG3350, 0.2M CaCl2, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 82.15 α = 90
b = 82.15 β = 90
c = 39.51 γ = 120
Symmetry
Space Group P 63

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2010-04-25
Diffraction Radiation
Monochromator Protocol
Double crystal, Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.2 0.9999 ALS 8.2.2

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
1.52 20 99.9 0.042 0.042 -- 6.7 -- 23541 0.0 -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)
1.52 1.55 100.0 0.349 0.349 5.0 6.2 --

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 1.521 19.731 -- 1.36 -- 23540 1998 99.93 -- 0.151 0.1484 0.1804 --
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 1.521 1.5586 -- 139 1484 0.1879 0.2324 -- 100.0
X Ray Diffraction 1.5586 1.6007 -- 142 1544 0.1758 0.2154 -- 100.0
X Ray Diffraction 1.6007 1.6478 -- 139 1540 0.1694 0.2242 -- 100.0
X Ray Diffraction 1.6478 1.7009 -- 141 1532 0.1635 0.1968 -- 100.0
X Ray Diffraction 1.7009 1.7617 -- 138 1522 0.1516 0.1765 -- 100.0
X Ray Diffraction 1.7617 1.8322 -- 145 1525 0.1484 0.1783 -- 100.0
X Ray Diffraction 1.8322 1.9155 -- 141 1546 0.1463 0.1732 -- 100.0
X Ray Diffraction 1.9155 2.0164 -- 141 1526 0.14 0.1814 -- 100.0
X Ray Diffraction 2.0164 2.1426 -- 147 1536 0.1447 0.2035 -- 100.0
X Ray Diffraction 2.1426 2.3078 -- 144 1539 0.1426 0.1683 -- 100.0
X Ray Diffraction 2.3078 2.5396 -- 146 1553 0.1397 0.1774 -- 100.0
X Ray Diffraction 2.5396 2.9061 -- 143 1548 0.1512 0.1826 -- 100.0
X Ray Diffraction 2.9061 3.6576 -- 141 1559 0.1374 0.1783 -- 100.0
X Ray Diffraction 3.6576 19.7325 -- 151 1588 0.1535 0.1695 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.8471
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.868
f_bond_d 0.019
f_dihedral_angle_d 15.771
f_chiral_restr 0.11
f_plane_restr 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1238
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 127

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHASER phasing version: 2.2.4
PHENIX refinement version: dev_1402
PDB_EXTRACT data extraction version: 3.11
BOS data collection
HKL-2000 data reduction
HKL-2000 data scaling