X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 293.0
Details 0.1M TRIS, 1.025M (NH4)2SO4, 0.1M NaCl, 1.5% PEG 400, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 236.85 α = 90
b = 73.15 β = 101.45
c = 132.47 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 101
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2012-06-21
Diffraction Radiation
Monochromator Protocol
Si[111] SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I911-3 1.000 MAX II I911-3

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
2.6 129.83 99.2 -- 0.101 -- 3.3 -- 68170 -- -- 34.95
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)
2.6 2.74 99.9 0.296 0.296 2.0 3.2 9943

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 2.6 46.172 -- 0.0 -- 68143 3446 99.06 -- 0.1818 0.1787 0.2389 R-free set generated in Scala
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 2.6 2.6356 -- 142 2611 0.2283 0.3403 -- 100.0
X Ray Diffraction 2.6356 2.6733 -- 122 2536 0.225 0.3278 -- 100.0
X Ray Diffraction 2.6733 2.7132 -- 131 2622 0.2071 0.3121 -- 100.0
X Ray Diffraction 2.7132 2.7556 -- 118 2637 0.1926 0.2764 -- 100.0
X Ray Diffraction 2.7556 2.8007 -- 122 2570 0.1943 0.3041 -- 100.0
X Ray Diffraction 2.8007 2.849 -- 131 2591 0.1974 0.2907 -- 100.0
X Ray Diffraction 2.849 2.9008 -- 150 2593 0.1976 0.2786 -- 100.0
X Ray Diffraction 2.9008 2.9566 -- 149 2563 0.1997 0.2729 -- 100.0
X Ray Diffraction 2.9566 3.0169 -- 117 2612 0.1935 0.2635 -- 100.0
X Ray Diffraction 3.0169 3.0825 -- 146 2583 0.1999 0.2578 -- 100.0
X Ray Diffraction 3.0825 3.1542 -- 135 2593 0.1832 0.2848 -- 99.0
X Ray Diffraction 3.1542 3.2331 -- 108 2591 0.1823 0.289 -- 99.0
X Ray Diffraction 3.2331 3.3205 -- 146 2598 0.1832 0.2359 -- 99.0
X Ray Diffraction 3.3205 3.4181 -- 130 2575 0.1758 0.2347 -- 99.0
X Ray Diffraction 3.4181 3.5284 -- 173 2574 0.168 0.2529 -- 99.0
X Ray Diffraction 3.5284 3.6545 -- 147 2572 0.1759 0.2305 -- 99.0
X Ray Diffraction 3.6545 3.8007 -- 135 2581 0.1705 0.2471 -- 99.0
X Ray Diffraction 3.8007 3.9736 -- 153 2573 0.1676 0.2018 -- 99.0
X Ray Diffraction 3.9736 4.183 -- 141 2566 0.1594 0.2213 -- 99.0
X Ray Diffraction 4.183 4.4449 -- 151 2580 0.147 0.2008 -- 99.0
X Ray Diffraction 4.4449 4.7877 -- 135 2584 0.1493 0.2001 -- 99.0
X Ray Diffraction 4.7877 5.2689 -- 149 2585 0.1608 0.2137 -- 98.0
X Ray Diffraction 5.2689 6.0299 -- 142 2595 0.1826 0.2207 -- 98.0
X Ray Diffraction 6.0299 7.5916 -- 142 2577 0.1982 0.2396 -- 98.0
X Ray Diffraction 7.5916 46.179 -- 131 2635 0.1972 0.2004 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.7157
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.071
f_angle_d 1.368
f_plane_restr 0.005
f_dihedral_angle_d 13.454
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 16170
Nucleic Acid Atoms 0
Heterogen Atoms 340
Solvent Atoms 407

Software

Software
Software Name Purpose
SCALA data scaling version: 3.3.16
PHENIX refinement version: 1.8.2_1309
PDB_EXTRACT data extraction version: 3.11
MxCuBE data collection version: marccd
XSCALE data scaling
PHASER phasing