X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.6
Temperature 290.0
Details 0.1M ammonium acetate, 0.1M sodium acetate, 24-30% PEG 4000 crystals obtained by streak-seeding

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.25 α = 90
b = 73.11 β = 109.53
c = 52.78 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 DECTRIS PILATUS 6M -- 2013-07-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1

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
1.46 41.13 99.3 -- 0.062 -- 3.8 -- 56120 -- -3.0 --
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)
1.46 1.55 97.8 0.442 -- 3.4 3.8 --

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 1.457 39.564 -- 1.38 -- 56118 2807 99.41 -- 0.1265 0.1248 0.1587 random selection
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 1.4574 1.4826 -- 128 2435 0.1566 0.2191 -- 93.0
X Ray Diffraction 1.4826 1.5095 -- 145 2725 0.1455 0.1949 -- 100.0
X Ray Diffraction 1.5095 1.5386 -- 138 2621 0.132 0.1974 -- 100.0
X Ray Diffraction 1.5386 1.57 -- 141 2684 0.1245 0.1541 -- 100.0
X Ray Diffraction 1.57 1.6041 -- 140 2646 0.1143 0.1737 -- 100.0
X Ray Diffraction 1.6041 1.6414 -- 140 2665 0.1112 0.155 -- 100.0
X Ray Diffraction 1.6414 1.6825 -- 140 2661 0.1115 0.1592 -- 100.0
X Ray Diffraction 1.6825 1.728 -- 142 2685 0.1072 0.1631 -- 100.0
X Ray Diffraction 1.728 1.7788 -- 140 2673 0.1037 0.1577 -- 100.0
X Ray Diffraction 1.7788 1.8362 -- 141 2677 0.1029 0.1639 -- 100.0
X Ray Diffraction 1.8362 1.9018 -- 140 2657 0.1001 0.1594 -- 100.0
X Ray Diffraction 1.9018 1.978 -- 141 2684 0.0988 0.1332 -- 100.0
X Ray Diffraction 1.978 2.068 -- 141 2661 0.0976 0.1321 -- 100.0
X Ray Diffraction 2.068 2.177 -- 141 2687 0.098 0.1245 -- 100.0
X Ray Diffraction 2.177 2.3134 -- 141 2677 0.1118 0.129 -- 100.0
X Ray Diffraction 2.3134 2.492 -- 141 2674 0.1169 0.1424 -- 99.0
X Ray Diffraction 2.492 2.7427 -- 140 2668 0.1267 0.1474 -- 100.0
X Ray Diffraction 2.7427 3.1395 -- 142 2696 0.132 0.1626 -- 100.0
X Ray Diffraction 3.1395 3.9548 -- 140 2693 0.1463 0.171 -- 100.0
X Ray Diffraction 3.9548 39.5788 -- 145 2742 0.1556 0.1831 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 10.2
f_bond_d 0.007
f_angle_d 1.211
f_plane_restr 0.005
f_chiral_restr 0.07
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2368
Nucleic Acid Atoms 0
Heterogen Atoms 36
Solvent Atoms 268

Software

Software
Software Name Purpose
PHENIX refinement version: 1.8.4_1492
XDS data reduction
XDS data scaling
Coot model building