X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Sitting Drop
pH 9
Temperature 298.0
Details 2M Ammonium sulfate, 0.1M TRIS, pH 9, sitting drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 122.61 α = 90
b = 122.61 β = 90
c = 47.33 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2007-06-02
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 0.99 APS 22-BM

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
1.98 50 87.2 0.099 -- -- 8.8 -- 25044 -- -- --
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)
1.98 2.05 42.8 0.473 -- -- 3.2 1219

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 1.9803 37.4635 -- -- -- 25023 1266 45.16 -- -- 0.1888 0.2387 --
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 1.9803 1.9942 -- -- 192 0.2629 -- -- 17.0
X Ray Diffraction 1.9942 2.0085 -- -- 210 0.2777 -- -- 18.0
X Ray Diffraction 2.0085 2.0233 -- -- 227 0.2595 -- -- 20.0
X Ray Diffraction 2.0233 2.0385 -- -- 304 0.2505 -- -- 25.0
X Ray Diffraction 2.0385 2.0542 -- -- 278 0.25 -- -- 24.0
X Ray Diffraction 2.0542 2.0704 -- -- 301 0.2695 -- -- 27.0
X Ray Diffraction 2.0704 2.0871 -- -- 323 0.2566 -- -- 27.0
X Ray Diffraction 2.0871 2.1043 -- -- 345 0.2308 -- -- 31.0
X Ray Diffraction 2.1043 2.1221 -- -- 371 0.2548 -- -- 32.0
X Ray Diffraction 2.1221 2.1406 -- -- 385 0.2442 -- -- 34.0
X Ray Diffraction 2.1406 2.1597 -- -- 419 0.2605 -- -- 35.0
X Ray Diffraction 2.1597 2.1795 -- -- 410 0.2259 -- -- 36.0
X Ray Diffraction 2.1795 2.2001 -- -- 422 0.2246 -- -- 37.0
X Ray Diffraction 2.2001 2.2214 -- -- 468 0.2195 -- -- 40.0
X Ray Diffraction 2.2214 2.2436 -- -- 489 0.2328 -- -- 43.0
X Ray Diffraction 2.2436 2.2668 -- -- 520 0.2262 -- -- 44.0
X Ray Diffraction 2.2668 2.2909 -- -- 489 0.2211 -- -- 45.0
X Ray Diffraction 2.2909 2.3161 -- -- 531 0.2127 -- -- 45.0
X Ray Diffraction 2.3161 2.3424 -- -- 548 0.197 -- -- 47.0
X Ray Diffraction 2.3424 2.3699 -- -- 545 0.2166 -- -- 48.0
X Ray Diffraction 2.3699 2.3988 -- -- 544 0.2128 -- -- 48.0
X Ray Diffraction 2.3988 2.4292 -- -- 554 0.2076 -- -- 49.0
X Ray Diffraction 2.4292 2.4611 -- -- 571 0.1966 -- -- 49.0
X Ray Diffraction 2.4611 2.4948 -- -- 588 0.2079 -- -- 49.0
X Ray Diffraction 2.4948 2.5305 -- -- 549 0.1925 -- -- 49.0
X Ray Diffraction 2.5305 2.5682 -- -- 540 0.1946 -- -- 48.0
X Ray Diffraction 2.5682 2.6084 -- -- 560 0.2027 -- -- 48.0
X Ray Diffraction 2.6084 2.6511 -- -- 566 0.2045 -- -- 49.0
X Ray Diffraction 2.6511 2.6968 -- -- 549 0.189 -- -- 48.0
X Ray Diffraction 2.6968 2.7458 -- -- 585 0.1891 -- -- 49.0
X Ray Diffraction 2.7458 2.7986 -- -- 579 0.1825 -- -- 50.0
X Ray Diffraction 2.7986 2.8557 -- -- 552 0.1849 -- -- 49.0
X Ray Diffraction 2.8557 2.9178 -- -- 560 0.191 -- -- 48.0
X Ray Diffraction 2.9178 2.9857 -- -- 585 0.2148 -- -- 50.0
X Ray Diffraction 2.9857 3.0603 -- -- 549 0.1837 -- -- 49.0
X Ray Diffraction 3.0603 3.143 -- -- 566 0.18 -- -- 49.0
X Ray Diffraction 3.143 3.2354 -- -- 572 0.1768 -- -- 50.0
X Ray Diffraction 3.2354 3.3398 -- -- 573 0.1727 -- -- 50.0
X Ray Diffraction 3.3398 3.4591 -- -- 584 0.1809 -- -- 50.0
X Ray Diffraction 3.4591 3.5975 -- -- 572 0.1702 -- -- 49.0
X Ray Diffraction 3.5975 3.7611 -- -- 572 0.1551 -- -- 49.0
X Ray Diffraction 3.7611 3.9591 -- -- 584 0.1422 -- -- 50.0
X Ray Diffraction 3.9591 4.2069 -- -- 546 0.1401 -- -- 49.0
X Ray Diffraction 4.2069 4.5312 -- -- 591 0.1396 -- -- 50.0
X Ray Diffraction 4.5312 4.9863 -- -- 584 0.156 -- -- 51.0
X Ray Diffraction 4.9863 5.7056 -- -- 596 0.1918 -- -- 51.0
X Ray Diffraction 5.7056 7.1802 -- -- 585 0.1923 -- -- 51.0
X Ray Diffraction 7.1802 37.4702 -- -- 624 0.1804 -- -- 54.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.1634
Anisotropic B[1][1] 3.287
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.287
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -6.574
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.044
f_plane_restr 0.002
f_dihedral_angle_d 9.361
f_nbd_refined 4.083
f_angle_d 0.56
f_bond_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2243
Nucleic Acid Atoms 0
Heterogen Atoms 85
Solvent Atoms 135

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHASER phasing
PHENIX refinement
PDB_EXTRACT data extraction version: 3.10