X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.2
Details 10-15% PEG-1000, 50 MM NAKPHOSPHATE PH 6.2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.62 α = 90
b = 78.77 β = 118.06
c = 39.63 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- 2008-12-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04 -- Diamond I04

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
1.5 32.09 96.7 0.04 -- -- 3.8 -- 31779 -- 2.0 23.63
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)
1.5 1.59 94.6 0.47 -- 3.78 3.78 --

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 1.5 39.31 -- 2.0 -- 31773 1636 97.07 -- 0.1881 0.1862 0.223 --
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 1.4994 1.5435 -- 138 2398 0.2564 0.2989 -- 94.0
X Ray Diffraction 1.5435 1.5933 -- 151 2466 0.2397 0.2761 -- 96.0
X Ray Diffraction 1.5933 1.6503 -- 135 2497 0.2276 0.2645 -- 97.0
X Ray Diffraction 1.6503 1.7163 -- 130 2491 0.2175 0.2723 -- 96.0
X Ray Diffraction 1.7163 1.7944 -- 129 2520 0.2012 0.244 -- 97.0
X Ray Diffraction 1.7944 1.889 -- 144 2491 0.2018 0.2499 -- 97.0
X Ray Diffraction 1.889 2.0074 -- 122 2535 0.1955 0.2338 -- 97.0
X Ray Diffraction 2.0074 2.1623 -- 152 2481 0.1873 0.2405 -- 98.0
X Ray Diffraction 2.1623 2.3799 -- 130 2574 0.1837 0.2312 -- 98.0
X Ray Diffraction 2.3799 2.7241 -- 133 2536 0.1785 0.2051 -- 98.0
X Ray Diffraction 2.7241 3.4315 -- 134 2563 0.1751 0.1985 -- 98.0
X Ray Diffraction 3.4315 32.097 -- 138 2585 0.1624 0.1883 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.8674
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.8925
Anisotropic B[2][2] -0.233
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.6344
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.006
f_angle_d 1.545
f_chiral_restr 0.144
f_dihedral_angle_d 17.008
f_plane_restr 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1714
Nucleic Acid Atoms 0
Heterogen Atoms 21
Solvent Atoms 279

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction
XDS data scaling
AMoRE phasing