X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.15
Details Hepes, KCl, MgCl2, NH4Cl, MPD, EtOH, Spermidine

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 279.92 α = 90
b = 279.92 β = 90
c = 870.59 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M-F -- 2013-04-07
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.873,0.972,1.000 ESRF ID23-1

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
3.4 200 89.4 0.156 -- 8.45 5.7 -- 246474 -- -- 109.33
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)
3.4 3.46 64.8 0.776 -- -- 2.8 8864

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 3.392 64.877 -- 1.35 -- 245559 12430 88.93 -- 0.2038 0.2018 0.2428 Random selection
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 3.3922 3.4307 -- 277 5036 0.3073 0.3384 -- 59.0
X Ray Diffraction 3.4307 3.4711 -- 283 5787 0.2954 0.3305 -- 67.0
X Ray Diffraction 3.4711 3.5134 -- 307 5967 0.2881 0.3375 -- 69.0
X Ray Diffraction 3.5134 3.5579 -- 393 6952 0.2907 0.3203 -- 81.0
X Ray Diffraction 3.5579 3.6047 -- 390 7047 0.2807 0.3171 -- 82.0
X Ray Diffraction 3.6047 3.6541 -- 409 7543 0.2663 0.2934 -- 87.0
X Ray Diffraction 3.6541 3.7063 -- 423 7641 0.2528 0.2908 -- 89.0
X Ray Diffraction 3.7063 3.7616 -- 429 8067 0.2449 0.2925 -- 93.0
X Ray Diffraction 3.7616 3.8204 -- 423 8000 0.2382 0.286 -- 93.0
X Ray Diffraction 3.8204 3.883 -- 440 8064 0.2331 0.2623 -- 93.0
X Ray Diffraction 3.883 3.9499 -- 430 8029 0.2278 0.2733 -- 93.0
X Ray Diffraction 3.9499 4.0218 -- 460 7977 0.2151 0.2546 -- 93.0
X Ray Diffraction 4.0218 4.0991 -- 420 8141 0.212 0.2584 -- 94.0
X Ray Diffraction 4.0991 4.1828 -- 466 8063 0.2021 0.2322 -- 93.0
X Ray Diffraction 4.1828 4.2737 -- 433 8063 0.1988 0.2407 -- 93.0
X Ray Diffraction 4.2737 4.3731 -- 470 8088 0.1969 0.2532 -- 93.0
X Ray Diffraction 4.3731 4.4824 -- 425 8110 0.1836 0.2419 -- 93.0
X Ray Diffraction 4.4824 4.6036 -- 421 8114 0.1805 0.225 -- 93.0
X Ray Diffraction 4.6036 4.739 -- 435 8110 0.1768 0.2153 -- 93.0
X Ray Diffraction 4.739 4.8919 -- 415 8136 0.1737 0.2356 -- 93.0
X Ray Diffraction 4.8919 5.0667 -- 429 8117 0.1665 0.2159 -- 93.0
X Ray Diffraction 5.0667 5.2695 -- 426 8196 0.1639 0.2133 -- 93.0
X Ray Diffraction 5.2695 5.5092 -- 436 8127 0.1702 0.2328 -- 93.0
X Ray Diffraction 5.5092 5.7995 -- 410 8206 0.1626 0.2094 -- 93.0
X Ray Diffraction 5.7995 6.1626 -- 431 8265 0.1682 0.222 -- 94.0
X Ray Diffraction 6.1626 6.6379 -- 430 8262 0.1711 0.2287 -- 93.0
X Ray Diffraction 6.6379 7.3051 -- 409 8244 0.1641 0.2028 -- 93.0
X Ray Diffraction 7.3051 8.3603 -- 409 8271 0.1756 0.2122 -- 92.0
X Ray Diffraction 8.3603 10.5258 -- 463 8234 0.1902 0.2319 -- 91.0
X Ray Diffraction 10.5258 64.8884 -- 438 8272 0.245 0.2556 -- 87.0
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.058
f_angle_d 1.086
f_bond_d 0.006
f_plane_restr 0.006
f_dihedral_angle_d 16.978
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 20181
Nucleic Acid Atoms 60581
Heterogen Atoms 703
Solvent Atoms 0

Software

Software
Software Name Purpose
PHENIX refinement version: (phenix.refine: 1.8.2_1309)
SCALEPACK data scaling
PDB_EXTRACT data extraction version: 3.15
DENZO data reduction