X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch
pH 6.5
Temperature 291.0
Details PEG8k, MPD, pH 6.5, microbatch, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 210.76 α = 90
b = 433.27 β = 90
c = 618.86 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.1 ALS 8.3.1

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
3.25 100 91.2 0.083 -- -- 2.5 801811 801811 2.0 2.0 --
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)
3.25 3.31 81.1 0.455 -- -- 1.8 --

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
FOURIER SYNTHESIS 3.2547 85.218 -- 0.02 754750 754750 15234 85.76 -- 0.1943 0.1933 0.245 --
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 3.2547 3.2917 -- 388 18760 0.2889 0.3373 -- 66.0
X Ray Diffraction 3.2917 3.3304 -- 372 19668 0.2682 0.2936 -- 69.0
X Ray Diffraction 3.3304 3.3711 -- 430 20216 0.2668 0.3065 -- 71.0
X Ray Diffraction 3.3711 3.4137 -- 421 20662 0.261 0.3079 -- 72.0
X Ray Diffraction 3.4137 3.4587 -- 487 21263 0.254 0.3072 -- 75.0
X Ray Diffraction 3.4587 3.506 -- 446 21604 0.2494 0.2931 -- 76.0
X Ray Diffraction 3.506 3.5561 -- 470 22050 0.2378 0.3067 -- 77.0
X Ray Diffraction 3.5561 3.6092 -- 430 22732 0.2329 0.2928 -- 79.0
X Ray Diffraction 3.6092 3.6656 -- 496 22922 0.2177 0.2772 -- 80.0
X Ray Diffraction 3.6656 3.7257 -- 467 23501 0.2117 0.2567 -- 82.0
X Ray Diffraction 3.7257 3.7899 -- 480 23859 0.212 0.2596 -- 83.0
X Ray Diffraction 3.7899 3.8589 -- 482 24266 0.2015 0.264 -- 85.0
X Ray Diffraction 3.8589 3.9331 -- 487 24561 0.1878 0.2796 -- 86.0
X Ray Diffraction 3.9331 4.0134 -- 538 24986 0.1898 0.2297 -- 87.0
X Ray Diffraction 4.0134 4.1006 -- 514 25215 0.185 0.2339 -- 88.0
X Ray Diffraction 4.1006 4.196 -- 522 25430 0.1782 0.2275 -- 89.0
X Ray Diffraction 4.196 4.3009 -- 521 25518 0.178 0.2346 -- 89.0
X Ray Diffraction 4.3009 4.4172 -- 500 25722 0.1805 0.2215 -- 90.0
X Ray Diffraction 4.4172 4.5472 -- 536 25713 0.1759 0.2225 -- 90.0
X Ray Diffraction 4.5472 4.694 -- 544 25855 0.1708 0.2349 -- 90.0
X Ray Diffraction 4.694 4.8617 -- 575 26129 0.1713 0.2203 -- 91.0
X Ray Diffraction 4.8617 5.0563 -- 547 26275 0.1733 0.225 -- 91.0
X Ray Diffraction 5.0563 5.2864 -- 533 26835 0.1664 0.2281 -- 93.0
X Ray Diffraction 5.2864 5.5651 -- 558 27158 0.1619 0.2275 -- 94.0
X Ray Diffraction 5.5651 5.9137 -- 552 27421 0.1641 0.2296 -- 95.0
X Ray Diffraction 5.9137 6.3702 -- 609 27572 0.1743 0.2485 -- 95.0
X Ray Diffraction 6.3702 7.0109 -- 570 27854 0.1621 0.2258 -- 96.0
X Ray Diffraction 7.0109 8.0248 -- 592 28242 0.166 0.2081 -- 97.0
X Ray Diffraction 8.0248 10.1078 -- 561 28585 0.1821 0.2289 -- 98.0
X Ray Diffraction 10.1078 85.2473 -- 606 28942 0.2032 0.2257 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -2.2555
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -12.542
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 9.4561
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.006
f_plane_restr 0.005
f_chiral_restr 0.063
f_angle_d 0.923
f_dihedral_angle_d 19.323
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 18554
Nucleic Acid Atoms 32895
Heterogen Atoms 43
Solvent Atoms 208

Software

Software
Software Name Purpose
SCALEPACK data scaling
PHENIX refinement version: 1.6.1_357
PDB_EXTRACT data extraction version: 3.10
PHENIX refinement version: (phenix.refine: 1.6.1_357)