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 = 37.69 α = 90
b = 79.05 β = 117.88
c = 39.62 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 39.53 99.2 0.04 -- -- 3.7 -- 32695 -- 2.0 23.082
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 98.8 0.38 -- 3.4 3.65 --

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 33.064 -- 2.01 -- 32683 1686 99.57 -- 0.1911 0.1891 0.2276 --
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 1.5002 1.5444 -- 144 2531 0.2519 0.2776 -- 98.0
X Ray Diffraction 1.5444 1.5942 -- 155 2579 0.2317 0.294 -- 100.0
X Ray Diffraction 1.5942 1.6512 -- 144 2576 0.2351 0.2569 -- 100.0
X Ray Diffraction 1.6512 1.7173 -- 129 2601 0.2187 0.2805 -- 100.0
X Ray Diffraction 1.7173 1.7955 -- 141 2588 0.208 0.2709 -- 100.0
X Ray Diffraction 1.7955 1.8901 -- 145 2575 0.2006 0.2403 -- 100.0
X Ray Diffraction 1.8901 2.0085 -- 131 2591 0.1893 0.2327 -- 100.0
X Ray Diffraction 2.0085 2.1636 -- 155 2535 0.1869 0.2188 -- 100.0
X Ray Diffraction 2.1636 2.3813 -- 133 2619 0.1806 0.2198 -- 100.0
X Ray Diffraction 2.3813 2.7257 -- 135 2587 0.1849 0.1927 -- 100.0
X Ray Diffraction 2.7257 3.4335 -- 134 2603 0.1783 0.2262 -- 100.0
X Ray Diffraction 3.4335 33.0724 -- 140 2612 0.1653 0.1988 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.6366
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.7944
Anisotropic B[2][2] 0.0232
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.6599
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.148
f_bond_d 0.006
f_angle_d 1.577
f_plane_restr 0.004
f_dihedral_angle_d 17.805
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1714
Nucleic Acid Atoms 0
Heterogen Atoms 16
Solvent Atoms 305

Software

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