X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.2
Details 8% PEG-1000, 100 MM NAK PHOSPHATE, PH 6.2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.66 α = 90
b = 78.71 β = 117.91
c = 39.67 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 35 96.7 0.04 -- -- 3.6 -- 31815 -- 2.0 23.6
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 95.2 0.4 -- 3.04 3.6 --

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 1.499 33.073 -- 2.0 -- 31805 1643 97.03 -- 0.1901 0.1882 0.2269 --
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 1.4991 1.5432 -- 147 2456 0.2653 0.2926 -- 95.0
X Ray Diffraction 1.5432 1.593 -- 144 2464 0.2462 0.2809 -- 96.0
X Ray Diffraction 1.593 1.6499 -- 135 2476 0.2404 0.3011 -- 96.0
X Ray Diffraction 1.6499 1.716 -- 125 2507 0.2311 0.2636 -- 97.0
X Ray Diffraction 1.716 1.7941 -- 139 2502 0.2155 0.2986 -- 97.0
X Ray Diffraction 1.7941 1.8887 -- 143 2506 0.2039 0.2386 -- 97.0
X Ray Diffraction 1.8887 2.007 -- 122 2522 0.1956 0.2339 -- 97.0
X Ray Diffraction 2.007 2.1619 -- 156 2475 0.1847 0.239 -- 97.0
X Ray Diffraction 2.1619 2.3794 -- 132 2564 0.1932 0.2361 -- 98.0
X Ray Diffraction 2.3794 2.7236 -- 129 2543 0.1864 0.2151 -- 98.0
X Ray Diffraction 2.7236 3.4309 -- 131 2566 0.1726 0.1987 -- 98.0
X Ray Diffraction 3.4309 33.0809 -- 140 2581 0.1597 0.1908 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.9171
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 3.3533
Anisotropic B[2][2] 0.1232
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.0404
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.568
f_bond_d 0.006
f_chiral_restr 0.151
f_dihedral_angle_d 18.14
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 16
Solvent Atoms 283

Software

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