X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.1 M HEPES PH 7.5, 0.2 M MAGNESIUM NITRATE, 8-16% (W/V) PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.87 α = 90
b = 90.87 β = 90
c = 92.92 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 ADSC KIRKPATRICK BAEZ BIMORPH MIRROR PAIR FOR HORIZONTAL AND VERTICAL FOCUSSING 2008-05-16
Diffraction Radiation
Monochromator Protocol
SI (111) DOUBLE CRYSTAL MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 -- DIAMOND I03

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
2.5 40.82 99.7 0.06 -- -- 5.92 -- 15706 -- 0.0 66.13
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)
2.5 2.64 100.0 0.66 -- 1.15 6.07 --

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 2.5 30.026 -- 1.62 -- 15678 802 99.61 -- 0.1974 0.1948 0.2427 --
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 2.5 2.6566 -- 121 2456 0.239 0.3124 -- 100.0
X Ray Diffraction 2.6566 2.8615 -- 118 2454 0.2282 0.2728 -- 100.0
X Ray Diffraction 2.8615 3.1492 -- 143 2459 0.2305 0.3109 -- 100.0
X Ray Diffraction 3.1492 3.6043 -- 135 2462 0.2084 0.2595 -- 100.0
X Ray Diffraction 3.6043 4.5385 -- 132 2514 0.1588 0.2084 -- 100.0
X Ray Diffraction 4.5385 30.0284 -- 153 2531 0.177 0.2051 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.873
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.873
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.746
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.057
f_dihedral_angle_d 17.409
f_angle_d 0.871
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2245
Nucleic Acid Atoms 0
Heterogen Atoms 41
Solvent Atoms 95

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHASER model building