X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 291.15
Details 100 mM Tris, 1mM DTT, 10% DMSO, 12% PEG 8000, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 291.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 91.19 α = 90
b = 65.05 β = 96.14
c = 70.62 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 113.15
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD mirror 2010-12-15
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 0.91841 BESSY 14.2

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
1.42 50 99.0 -- -- -- 3.1 76733 76733 -- -- 10.23
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)
1.42 1.44 96.2 -- -- 2.2 2.6 3750

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 1.42 24.732 -- 1.0 73301 73301 7398 94.59 -- 0.1342 0.1312 0.1611 Random, 10 %
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 1.42 1.4356 -- 218 1890 0.2492 0.2679 -- 80.0
X Ray Diffraction 1.4356 1.4525 -- 201 1912 0.2245 0.2814 -- 85.0
X Ray Diffraction 1.4525 1.4702 -- 231 2011 0.2053 0.2467 -- 86.0
X Ray Diffraction 1.4702 1.4888 -- 229 2012 0.1771 0.2366 -- 88.0
X Ray Diffraction 1.4888 1.5084 -- 222 2112 0.169 0.2017 -- 90.0
X Ray Diffraction 1.5084 1.5291 -- 230 2044 0.1488 0.2222 -- 90.0
X Ray Diffraction 1.5291 1.5509 -- 218 2162 0.129 0.1779 -- 91.0
X Ray Diffraction 1.5509 1.5741 -- 255 2114 0.1168 0.1685 -- 92.0
X Ray Diffraction 1.5741 1.5987 -- 244 2202 0.1072 0.1647 -- 94.0
X Ray Diffraction 1.5987 1.6249 -- 240 2159 0.1032 0.1524 -- 95.0
X Ray Diffraction 1.6249 1.6529 -- 262 2224 0.1004 0.1495 -- 95.0
X Ray Diffraction 1.6529 1.6829 -- 235 2224 0.0975 0.1399 -- 95.0
X Ray Diffraction 1.6829 1.7153 -- 242 2189 0.0959 0.1533 -- 95.0
X Ray Diffraction 1.7153 1.7503 -- 255 2204 0.0921 0.131 -- 96.0
X Ray Diffraction 1.7503 1.7884 -- 253 2217 0.0958 0.1367 -- 97.0
X Ray Diffraction 1.7884 1.8299 -- 258 2241 0.0974 0.1312 -- 97.0
X Ray Diffraction 1.8299 1.8757 -- 255 2253 0.1044 0.1419 -- 96.0
X Ray Diffraction 1.8757 1.9264 -- 256 2236 0.114 0.1478 -- 97.0
X Ray Diffraction 1.9264 1.983 -- 264 2236 0.1174 0.1655 -- 98.0
X Ray Diffraction 1.983 2.047 -- 285 2284 0.1166 0.1576 -- 99.0
X Ray Diffraction 2.047 2.1201 -- 279 2271 0.1234 0.1482 -- 99.0
X Ray Diffraction 2.1201 2.205 -- 244 2318 0.1211 0.1588 -- 100.0
X Ray Diffraction 2.205 2.3053 -- 230 2324 0.1202 0.1475 -- 99.0
X Ray Diffraction 2.3053 2.4267 -- 267 2307 0.119 0.1486 -- 99.0
X Ray Diffraction 2.4267 2.5786 -- 257 2288 0.1283 0.1577 -- 99.0
X Ray Diffraction 2.5786 2.7775 -- 255 2341 0.1323 0.1609 -- 99.0
X Ray Diffraction 2.7775 3.0565 -- 258 2313 0.1386 0.1622 -- 99.0
X Ray Diffraction 3.0565 3.4977 -- 245 2348 0.1346 0.169 -- 99.0
X Ray Diffraction 3.4977 4.4027 -- 259 2282 0.1352 0.1425 -- 97.0
X Ray Diffraction 4.4027 24.732 -- 251 2185 0.1805 0.1746 -- 91.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Anisotropic B[1][1] 1.4947
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 3.7991
Anisotropic B[2][2] 0.683
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.1777
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.071
f_dihedral_angle_d 12.265
f_angle_d 1.108
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2843
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 397

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
Phaser Structure Solution
PHENIX (phenix.refine: 1.7.2_869) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.2_869) refinement
Phaser model building
MAR345dtb data collection