X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 293.0
Details 40 mM potassium dihydrogen phosphate, 20% glycerol, 16% PEG8000, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.04 α = 90
b = 75.3 β = 91.53
c = 60.8 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 MARMOSAIC 300 mm CCD -- 2011-08-17
Diffraction Radiation
Monochromator Protocol
Double crystal cryo-cooled Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-D 1.033 APS 23-ID-D

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
1.8 75.3 99.8 -- 0.11 -- 3.6 36325 36325 0.0 -3.0 21.0
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)
1.805 1.84 99.5 -- 0.62 3.0 3.5 1809

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 1.805 44.025 -- 0.0 36301 36301 1813 99.39 0.1723 0.1723 0.1701 0.2139 RANDOM
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 1.805 1.8541 -- 132 2513 0.2242 0.2904 -- 94.0
X Ray Diffraction 1.8541 1.9086 -- 145 2655 0.2066 0.2719 -- 100.0
X Ray Diffraction 1.9086 1.9702 -- 117 2638 0.195 0.2257 -- 100.0
X Ray Diffraction 1.9702 2.0407 -- 128 2665 0.1901 0.2424 -- 100.0
X Ray Diffraction 2.0407 2.1224 -- 136 2656 0.1801 0.2472 -- 100.0
X Ray Diffraction 2.1224 2.219 -- 129 2669 0.1838 0.2089 -- 100.0
X Ray Diffraction 2.219 2.3359 -- 131 2667 0.1745 0.2418 -- 100.0
X Ray Diffraction 2.3359 2.4823 -- 130 2671 0.1888 0.2351 -- 100.0
X Ray Diffraction 2.4823 2.6739 -- 151 2657 0.1925 0.2572 -- 100.0
X Ray Diffraction 2.6739 2.943 -- 170 2657 0.1862 0.2525 -- 100.0
X Ray Diffraction 2.943 3.3687 -- 155 2657 0.1723 0.1933 -- 100.0
X Ray Diffraction 3.3687 4.2436 -- 151 2660 0.1374 0.1824 -- 100.0
X Ray Diffraction 4.2436 44.0383 -- 138 2723 0.1477 0.17 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.7
Anisotropic B[1][1] 2.3967
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.8052
Anisotropic B[2][2] 2.1989
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.4552
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_dihedral_angle_d 12.715
f_bond_d 0.007
f_angle_d 1.208
f_chiral_restr 0.083
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3479
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 317

Software

Software
Software Name Purpose
Blu-Ice data collection
PHASER phasing
PHENIX refinement version: (phenix.refine: 1.7.2_869)
HKL-2000 data reduction
SCALEPACK data scaling