X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 298.0
Details 0.05M zinc acetate, 20% PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.42 α = 90
b = 53.92 β = 89.87
c = 116.17 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
CCD RAYONIX MX225HE -- 2014-08-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 31-ID 0.97930 APS 31-ID

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
1.07 19.83 98.2 0.067 0.067 6.579 3.5 -- 283158 -- -- 11.27
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)
1.07 1.13 88.3 0.494 0.494 1.3 2.6 36987

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 1.1 19.829 -- 1.47 -- 266067 13086 99.58 -- 0.1892 0.1884 0.2036 --
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 1.1 1.1125 -- 417 7700 0.4861 0.5079 -- 92.0
X Ray Diffraction 1.1125 1.1256 -- 390 8302 0.4566 0.4793 -- 98.0
X Ray Diffraction 1.1256 1.1393 -- 397 8465 0.4159 0.3927 -- 100.0
X Ray Diffraction 1.1393 1.1537 -- 357 8484 0.3992 0.3964 -- 100.0
X Ray Diffraction 1.1537 1.1689 -- 427 8460 0.3843 0.3773 -- 100.0
X Ray Diffraction 1.1689 1.1849 -- 458 8443 0.3681 0.394 -- 100.0
X Ray Diffraction 1.1849 1.2018 -- 381 8382 0.3542 0.3502 -- 100.0
X Ray Diffraction 1.2018 1.2198 -- 403 8520 0.3451 0.3605 -- 100.0
X Ray Diffraction 1.2198 1.2388 -- 424 8408 0.3311 0.3418 -- 100.0
X Ray Diffraction 1.2388 1.2591 -- 451 8424 0.3179 0.3636 -- 100.0
X Ray Diffraction 1.2591 1.2809 -- 377 8525 0.3098 0.3221 -- 100.0
X Ray Diffraction 1.2809 1.3041 -- 458 8410 0.2906 0.3223 -- 100.0
X Ray Diffraction 1.3041 1.3292 -- 418 8437 0.2865 0.3113 -- 100.0
X Ray Diffraction 1.3292 1.3563 -- 402 8473 0.266 0.302 -- 100.0
X Ray Diffraction 1.3563 1.3858 -- 382 8493 0.261 0.2908 -- 100.0
X Ray Diffraction 1.3858 1.4181 -- 428 8444 0.2485 0.2919 -- 100.0
X Ray Diffraction 1.4181 1.4535 -- 481 8430 0.2326 0.2663 -- 100.0
X Ray Diffraction 1.4535 1.4928 -- 479 8445 0.2163 0.234 -- 100.0
X Ray Diffraction 1.4928 1.5367 -- 385 8450 0.2041 0.229 -- 100.0
X Ray Diffraction 1.5367 1.5863 -- 425 8509 0.1877 0.2124 -- 100.0
X Ray Diffraction 1.5863 1.643 -- 476 8391 0.1751 0.2083 -- 100.0
X Ray Diffraction 1.643 1.7087 -- 521 8405 0.1687 0.1927 -- 100.0
X Ray Diffraction 1.7087 1.7864 -- 444 8474 0.1648 0.1922 -- 100.0
X Ray Diffraction 1.7864 1.8805 -- 496 8428 0.1623 0.1726 -- 100.0
X Ray Diffraction 1.8805 1.9983 -- 417 8536 0.1519 0.1741 -- 100.0
X Ray Diffraction 1.9983 2.1524 -- 530 8373 0.1412 0.1581 -- 100.0
X Ray Diffraction 2.1524 2.3687 -- 446 8520 0.1379 0.1438 -- 100.0
X Ray Diffraction 2.3687 2.7107 -- 456 8527 0.1412 0.153 -- 100.0
X Ray Diffraction 2.7107 3.4123 -- 467 8538 0.1412 0.1567 -- 100.0
X Ray Diffraction 3.4123 19.8321 -- 493 8585 0.1431 0.165 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.7782
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.29
f_plane_restr 0.007
f_dihedral_angle_d 13.046
f_bond_d 0.008
f_chiral_restr 0.074
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5426
Nucleic Acid Atoms 0
Heterogen Atoms 42
Solvent Atoms 818

Software

Software
Software Name Purpose
SCALA data scaling version: 3.2.5
PHASER phasing version: 2.5.6
PHENIX refinement
PDB_EXTRACT data extraction version: 3.15
MOSFLM data reduction
PHASER phasing