X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 298.0
Details 10% PEG 8000, 0.2 M (NH4)2SO4 and 0.1 M sodium citrate (pH 5.6), VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.78 α = 90
b = 119.41 β = 90.26
c = 146.02 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2012-11-20
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25

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
2.3 39.12 -- -- -- -- -- -- 110655 -- -- --

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 2.3 38.403 -- 1.34 -- 110586 5526 98.52 -- 0.2537 0.2519 0.2871 --
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 2.3 2.3261 -- 193 3466 0.2664 0.2935 -- 100.0
X Ray Diffraction 2.3261 2.3535 -- 199 3527 0.2685 0.3685 -- 100.0
X Ray Diffraction 2.3535 2.3822 -- 205 3566 0.2703 0.3442 -- 100.0
X Ray Diffraction 2.3822 2.4123 -- 181 3486 0.2783 0.3312 -- 100.0
X Ray Diffraction 2.4123 2.4441 -- 185 3539 0.2704 0.3463 -- 100.0
X Ray Diffraction 2.4441 2.4776 -- 195 3527 0.2694 0.3127 -- 100.0
X Ray Diffraction 2.4776 2.5129 -- 192 3508 0.2612 0.338 -- 100.0
X Ray Diffraction 2.5129 2.5504 -- 209 3560 0.2649 0.3165 -- 100.0
X Ray Diffraction 2.5504 2.5903 -- 172 3506 0.2608 0.3105 -- 100.0
X Ray Diffraction 2.5903 2.6327 -- 157 3588 0.2659 0.309 -- 100.0
X Ray Diffraction 2.6327 2.6781 -- 175 3484 0.2704 0.2934 -- 100.0
X Ray Diffraction 2.6781 2.7268 -- 178 3587 0.2705 0.3359 -- 100.0
X Ray Diffraction 2.7268 2.7793 -- 186 3500 0.2731 0.332 -- 100.0
X Ray Diffraction 2.7793 2.836 -- 166 3576 0.2714 0.3293 -- 100.0
X Ray Diffraction 2.836 2.8976 -- 179 3508 0.2754 0.3094 -- 100.0
X Ray Diffraction 2.8976 2.965 -- 204 3514 0.2759 0.3359 -- 99.0
X Ray Diffraction 2.965 3.0391 -- 175 3517 0.2768 0.3167 -- 99.0
X Ray Diffraction 3.0391 3.1212 -- 173 3529 0.2744 0.3376 -- 99.0
X Ray Diffraction 3.1212 3.213 -- 192 3525 0.2747 0.334 -- 99.0
X Ray Diffraction 3.213 3.3167 -- 175 3444 0.2714 0.2891 -- 97.0
X Ray Diffraction 3.3167 3.4352 -- 164 3428 0.2605 0.3106 -- 96.0
X Ray Diffraction 3.4352 3.5726 -- 185 3460 0.2613 0.2943 -- 97.0
X Ray Diffraction 3.5726 3.7351 -- 187 3443 0.2621 0.3093 -- 97.0
X Ray Diffraction 3.7351 3.9318 -- 191 3409 0.2447 0.2629 -- 96.0
X Ray Diffraction 3.9318 4.1779 -- 165 3444 0.2352 0.2383 -- 96.0
X Ray Diffraction 4.1779 4.5 -- 182 3439 0.2346 0.2494 -- 96.0
X Ray Diffraction 4.5 4.952 -- 171 3492 0.223 0.2555 -- 97.0
X Ray Diffraction 4.952 5.6666 -- 202 3473 0.2265 0.2724 -- 97.0
X Ray Diffraction 5.6666 7.1319 -- 198 3463 0.2446 0.2527 -- 97.0
X Ray Diffraction 7.1319 38.408 -- 190 3552 0.2156 0.2261 -- 97.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.051
f_dihedral_angle_d 15.688
f_angle_d 0.781
f_bond_d 0.012
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 13979
Nucleic Acid Atoms 1234
Heterogen Atoms 128
Solvent Atoms 398

Software

Computing
Computing Package Purpose
CBASS Data Collection
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: dev_1284) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: dev_1227) refinement
PHASER model building
CBASS data collection