X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.15
Details 22% W/V POLYACRYLIC ACID SODIUM SALT 5100, 20MM MGCL2, 100MM HEPES PH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.14 α = 90
b = 164.14 β = 107.04
c = 73.45 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 225 mm CCD -- 2010-03-22
Diffraction Radiation
Monochromator Protocol
DIAMOND LAUE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-G 0.97872 APS 21-ID-G

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
2.15 29.56 95.3 -- 0.133 -- 3.6 -- 83087 0.0 1.5 32.8

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 2.15 29.56 1.5 0.0 -- 83087 2007 95.3 0.2004 0.2004 0.1997 0.2262 PHENIX selected about 2000 reflections distributed roughly equally among the shells
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 2.15 2.2038 5219 129 5219 0.3383 0.3501 -- 86.0
X Ray Diffraction 2.2038 2.2633 5281 144 5281 0.3168 0.3139 -- 88.0
X Ray Diffraction 2.2633 2.3299 5433 117 5433 0.2879 0.3302 -- 90.0
X Ray Diffraction 2.3299 2.4051 5544 139 5544 0.2576 0.254 -- 92.0
X Ray Diffraction 2.4051 2.491 5663 146 5663 0.255 0.3038 -- 94.0
X Ray Diffraction 2.491 2.5907 5860 139 5860 0.2333 0.2928 -- 96.0
X Ray Diffraction 2.5907 2.7085 5902 155 5902 0.2245 0.2491 -- 97.0
X Ray Diffraction 2.7085 2.8512 5994 154 5994 0.1965 0.2339 -- 98.0
X Ray Diffraction 2.8512 3.0296 5991 142 5991 0.1913 0.2437 -- 99.0
X Ray Diffraction 3.0296 3.2633 5995 144 5995 0.1822 0.2277 -- 99.0
X Ray Diffraction 3.2633 3.5912 6036 148 6036 0.1809 0.2258 -- 99.0
X Ray Diffraction 3.5912 4.1096 6048 154 6048 0.1708 0.211 -- 99.0
X Ray Diffraction 4.1096 5.1732 6045 152 6045 0.155 0.1557 -- 99.0
X Ray Diffraction 5.1732 29.56 6069 144 6069 0.1929 0.1933 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic plus TLS
Mean Isotropic B 45.2
Anisotropic B[1][1] 9.618
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 5.181
Anisotropic B[2][2] -7.6602
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.9577
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.086
f_dihedral_angle_d 16.036
f_angle_d 1.168
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8896
Nucleic Acid Atoms 0
Heterogen Atoms 104
Solvent Atoms 517

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7_650) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7_650) refinement
PHASER model building
MAR345dtb data collection