X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6.2
Temperature 295.0
Details 0.1 M Na citrate, 27% PEG 4000, 18% isopropanol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.14 α = 90
b = 45.14 β = 90
c = 247.05 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX-225 -- 2010-10-03
Diffraction Radiation
Monochromator Protocol
DCM MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.9793 CLSI 08ID-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
1.6 41.17 99.9 0.071 -- -- 8.5 -- 40026 -- -3.0 --
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)
1.6 1.64 98.9 0.703 -- 2.44 -- --

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 1.6 41.175 -- 2.01 -- 40019 1992 99.9 -- 0.1616 0.1606 0.1819 --
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 1.5999 1.6399 -- 138 2586 0.2416 0.2734 -- 99.0
X Ray Diffraction 1.6399 1.6843 -- 137 2678 0.2051 0.2688 -- 100.0
X Ray Diffraction 1.6843 1.7338 -- 140 2694 0.186 0.2264 -- 100.0
X Ray Diffraction 1.7338 1.7898 -- 142 2647 0.1777 0.2181 -- 100.0
X Ray Diffraction 1.7898 1.8538 -- 136 2656 0.1658 0.1984 -- 100.0
X Ray Diffraction 1.8538 1.928 -- 142 2670 0.1589 0.1894 -- 100.0
X Ray Diffraction 1.928 2.0157 -- 144 2692 0.1564 0.1857 -- 100.0
X Ray Diffraction 2.0157 2.122 -- 138 2704 0.1449 0.1645 -- 100.0
X Ray Diffraction 2.122 2.2549 -- 140 2732 0.1399 0.1551 -- 100.0
X Ray Diffraction 2.2549 2.429 -- 142 2711 0.1399 0.1706 -- 100.0
X Ray Diffraction 2.429 2.6734 -- 144 2709 0.1494 0.1666 -- 100.0
X Ray Diffraction 2.6734 3.0602 -- 145 2763 0.1612 0.1658 -- 100.0
X Ray Diffraction 3.0602 3.855 -- 149 2802 0.1457 0.1876 -- 100.0
X Ray Diffraction 3.855 41.1886 -- 155 2983 0.1763 0.1779 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.25
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.071
f_angle_d 1.318
f_bond_d 0.01
f_dihedral_angle_d 12.806
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2334
Nucleic Acid Atoms 0
Heterogen Atoms 168
Solvent Atoms 287

Software

Software
Software Name Purpose
XSCALE data scaling
PHENIX refinement version: 1.8_1069
PDB_EXTRACT data extraction version: 3.20
XDS data reduction version: Mar 5, 2012
PHENIX phasing