X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 277.15
Details 15% PEG8000, 20mM sodium phophate, 175mM sodium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.8 α = 90
b = 71.4 β = 100.3
c = 72.5 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 107
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD Collimating mirror 2009-06-22
Diffraction Radiation
Monochromator Protocol
Bartels Monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA 1.00 SLS X06DA

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
1.52 50 99.8 -- 0.065 -- 3.1 53781 53781 -- -- --
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)
1.52 1.55 99.5 -- 0.497 2.2 2.9 2645

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 1.52 35.666 -- -- 53637 51053 2584 94.83 0.1558 0.1558 0.1552 0.165 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 1.52 1.5743 -- 230 4315 0.2075 0.2095 -- 85.0
X Ray Diffraction 1.5743 1.6374 -- 264 4554 0.1914 0.2135 -- 90.0
X Ray Diffraction 1.6374 1.7119 -- 242 4688 0.1778 0.2071 -- 92.0
X Ray Diffraction 1.7119 1.8021 -- 244 4755 0.1573 0.177 -- 93.0
X Ray Diffraction 1.8021 1.915 -- 246 4905 0.1496 0.1664 -- 95.0
X Ray Diffraction 1.915 2.0629 -- 242 4959 0.1435 0.15 -- 97.0
X Ray Diffraction 2.0629 2.2705 -- 274 5025 0.1466 0.1641 -- 98.0
X Ray Diffraction 2.2705 2.5989 -- 263 5051 0.1566 0.1762 -- 99.0
X Ray Diffraction 2.5989 3.274 -- 281 5081 0.1628 0.1742 -- 99.0
X Ray Diffraction 3.274 35.6756 -- 298 5136 0.143 0.1404 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.6408
Anisotropic B[1][1] 2.3727
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -2.3632
Anisotropic B[2][2] -1.5382
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.8346
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 15.531
f_plane_restr 0.005
f_chiral_restr 0.075
f_angle_d 1.121
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2340
Nucleic Acid Atoms 0
Heterogen Atoms 54
Solvent Atoms 366

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
PHASER model building
MAR345dtb data collection