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 -- 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_plane_restr 0.004
f_chiral_restr 0.151
f_dihedral_angle_d 18.14
f_angle_d 1.568
f_bond_d 0.006
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

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