X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 277.0
Details 12% PEG3350, 0.1M Malonate pH=6.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.97 α = 90
b = 58.97 β = 90
c = 100.44 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2014-07-13
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F

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
2.06 50 99.9 0.068 0.053 -- 10.8 -- 13048 -- -- --
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)
2.06 2.1 99.8 0.533 -- 5.12 10.9 --

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 2.06 45.526 -- 1.39 -- 13010 633 99.92 -- 0.2042 0.2016 0.2545 --
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 2.0605 2.2195 -- 117 2417 0.224 0.2569 -- 100.0
X Ray Diffraction 2.2195 2.4429 -- 123 2459 0.2298 0.2587 -- 100.0
X Ray Diffraction 2.4429 2.7963 -- 121 2437 0.2278 0.3156 -- 100.0
X Ray Diffraction 2.7963 3.5229 -- 134 2476 0.2061 0.2284 -- 100.0
X Ray Diffraction 3.5229 45.5374 -- 138 2588 0.1811 0.2502 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -0.2565
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.2565
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.5131
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.009
f_dihedral_angle_d 15.737
f_chiral_restr 0.091
f_plane_restr 0.004
f_angle_d 1.228
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1092
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 123

Software

Software
Software Name Purpose
PHENIX refinement version: (phenix.refine: 1.7.2_869)
HKL-2000 data reduction
HKL-2000 data scaling
MOLREP phasing