X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 300.0
Details PEG3350, malonate, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 300K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 168.25 α = 90
b = 81.49 β = 117.13
c = 120.41 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-10-26
Diffraction Radiation
Monochromator Protocol
Si 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 0.9774 ALS 5.0.1

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
1.9 50 99.8 -- 0.069 -- 3.7 114391 n/a 0.0 -3.0 21.0

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 1.896 35.022 -- 1.34 -- -- 684 99.5 0.161 0.1597 0.1594 0.2044 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 1.8963 2.0427 -- 130 22428 0.2275 0.2753 -- 99.0
X Ray Diffraction 2.0427 2.2483 -- 138 22616 0.1791 0.1931 -- 100.0
X Ray Diffraction 2.2483 2.5735 -- 139 22683 0.167 0.2418 -- 100.0
X Ray Diffraction 2.5735 3.242 -- 128 22815 0.154 0.2119 -- 100.0
X Ray Diffraction 3.242 35.0282 -- 149 22952 0.1392 0.1777 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model individual atom
Anisotropic B[1][1] 3.2422
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.3282
Anisotropic B[2][2] -1.225
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.0172
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.069
f_dihedral_angle_d 18.369
f_angle_d 1.064
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10232
Nucleic Acid Atoms 0
Heterogen Atoms 341
Solvent Atoms 1222

Software

Computing
Computing Package Purpose
BOS Data Collection
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
PHASER model building
BOS data collection