X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 298.0
Details PEG MPD, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 99.87 α = 90
b = 41.11 β = 115.63
c = 109.58 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2012-09-10
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.980110 SOLEIL PROXIMA 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
1.5 37 99.1 -- -- -- -- 65228 64638 -3.0 -3.0 21.12
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)
1.5 1.59 97.5 -- -- -- -- --

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 1.5 35.572 -- 2.04 65228 64346 3219 99.55 -- 0.1659 0.1643 0.1957 random
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 1.5 1.5224 -- 139 2638 0.2846 0.3002 -- 100.0
X Ray Diffraction 1.5224 1.5462 -- 139 2627 0.2556 0.27 -- 100.0
X Ray Diffraction 1.5462 1.5715 -- 139 2636 0.249 0.2953 -- 100.0
X Ray Diffraction 1.5715 1.5986 -- 139 2652 0.2432 0.304 -- 100.0
X Ray Diffraction 1.5986 1.6277 -- 139 2639 0.2284 0.2745 -- 100.0
X Ray Diffraction 1.6277 1.659 -- 139 2643 0.21 0.2448 -- 100.0
X Ray Diffraction 1.659 1.6929 -- 140 2655 0.2084 0.2664 -- 100.0
X Ray Diffraction 1.6929 1.7297 -- 140 2647 0.1963 0.2145 -- 100.0
X Ray Diffraction 1.7297 1.7699 -- 138 2628 0.189 0.2666 -- 100.0
X Ray Diffraction 1.7699 1.8142 -- 139 2644 0.1867 0.2294 -- 100.0
X Ray Diffraction 1.8142 1.8632 -- 141 2674 0.1697 0.1912 -- 99.0
X Ray Diffraction 1.8632 1.9181 -- 138 2623 0.1599 0.2063 -- 99.0
X Ray Diffraction 1.9181 1.98 -- 140 2663 0.1557 0.1846 -- 100.0
X Ray Diffraction 1.98 2.0507 -- 138 2630 0.1537 0.181 -- 99.0
X Ray Diffraction 2.0507 2.1328 -- 138 2613 0.1552 0.1789 -- 99.0
X Ray Diffraction 2.1328 2.2299 -- 140 2653 0.1491 0.1582 -- 99.0
X Ray Diffraction 2.2299 2.3474 -- 140 2671 0.1481 0.1836 -- 99.0
X Ray Diffraction 2.3474 2.4945 -- 141 2670 0.1461 0.1685 -- 100.0
X Ray Diffraction 2.4945 2.687 -- 140 2672 0.1499 0.2046 -- 100.0
X Ray Diffraction 2.687 2.9573 -- 141 2682 0.1549 0.1745 -- 100.0
X Ray Diffraction 2.9573 3.3849 -- 142 2686 0.1519 0.2095 -- 99.0
X Ray Diffraction 3.3849 4.2635 -- 142 2696 0.1434 0.1791 -- 100.0
X Ray Diffraction 4.2635 35.5818 -- 147 2785 0.1805 0.1922 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.9941
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -3.316
Anisotropic B[2][2] 0.4547
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.4488
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.279
f_dihedral_angle_d 13.269
f_chiral_restr 0.07
f_plane_restr 0.006
f_bond_d 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2966
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 436

Software

Software
Software Name Purpose
DNA data collection
MOLREP phasing
PHENIX refinement version: (phenix.refine: 1.7.2_869)
XDS data reduction
XDS data scaling