X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Details 100 MM TRISHCL 8.5 AND 2.0 M MONO-AMMONIUM DIHYDROGEN PHOSPHATE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 135.89 α = 90
b = 155.54 β = 90
c = 146.87 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 -- 2012-07-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 -- ESRF ID23-1

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
2.95 30.46 95.5 0.11 -- -- 6.8 -- 31598 -- 2.0 77.85
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)
2.95 3.06 93.7 0.75 -- 2.0 5.3 --

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 2.95 30.456 -- 1.34 -- 31541 1598 95.44 -- 0.1692 0.167 0.2107 --
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 2.95 3.0451 -- 150 2606 0.2993 0.3351 -- 93.0
X Ray Diffraction 3.0451 3.1539 -- 150 2621 0.2469 0.3156 -- 93.0
X Ray Diffraction 3.1539 3.28 -- 134 2621 0.2315 0.3071 -- 93.0
X Ray Diffraction 3.28 3.4291 -- 161 2617 0.2145 0.2129 -- 93.0
X Ray Diffraction 3.4291 3.6096 -- 126 2611 0.1935 0.2712 -- 92.0
X Ray Diffraction 3.6096 3.8354 -- 131 2635 0.1703 0.2195 -- 92.0
X Ray Diffraction 3.8354 4.1308 -- 151 2678 0.1468 0.2026 -- 95.0
X Ray Diffraction 4.1308 4.5453 -- 144 2857 0.1367 0.1969 -- 100.0
X Ray Diffraction 4.5453 5.2002 -- 151 2870 0.1332 0.169 -- 100.0
X Ray Diffraction 5.2002 6.541 -- 154 2881 0.1582 0.1896 -- 100.0
X Ray Diffraction 6.541 30.4573 -- 146 2946 0.1571 0.185 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 73.6
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.077
f_dihedral_angle_d 15.29
f_angle_d 1.174
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4878
Nucleic Acid Atoms 1486
Heterogen Atoms 10
Solvent Atoms 0

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
AIMLESS Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHASER model building