X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 298.0
Details 1.8 M NaCl, 100 mM Tris-HCl (pH 8.0), 25 mM MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 124.34 α = 90
b = 124.34 β = 90
c = 174.98 γ = 90
Symmetry
Space Group I 4

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2010-12-03
Diffraction Radiation
Monochromator Protocol
side scattering I-beam bent single crystal; asymmetric cut 4.9650 deg SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 1.0972109 SSRL BL7-1

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
2.11 39.32 99.34 0.084 -- -- 9.0 -- 75962 -- -- --

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
-- 2.11 39.321 -- 1.35 -- 75688 7640 99.27 -- 0.1842 0.1783 0.2363 --
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 2.1084 2.1323 -- 229 1984 0.3655 0.3874 -- 88.0
X Ray Diffraction 2.1323 2.1574 -- 263 2237 0.3379 0.3853 -- 100.0
X Ray Diffraction 2.1574 2.1837 -- 232 2282 0.3137 0.3452 -- 100.0
X Ray Diffraction 2.1837 2.2114 -- 263 2298 0.29 0.3096 -- 100.0
X Ray Diffraction 2.2114 2.2404 -- 247 2249 0.2824 0.3272 -- 99.0
X Ray Diffraction 2.2404 2.2711 -- 247 2268 0.2888 0.3202 -- 99.0
X Ray Diffraction 2.2711 2.3036 -- 234 2311 0.2578 0.3385 -- 100.0
X Ray Diffraction 2.3036 2.338 -- 264 2285 0.2293 0.3017 -- 100.0
X Ray Diffraction 2.338 2.3745 -- 261 2241 0.229 0.2862 -- 100.0
X Ray Diffraction 2.3745 2.4134 -- 243 2271 0.2214 0.333 -- 100.0
X Ray Diffraction 2.4134 2.455 -- 293 2235 0.2057 0.2792 -- 100.0
X Ray Diffraction 2.455 2.4997 -- 274 2248 0.217 0.2762 -- 100.0
X Ray Diffraction 2.4997 2.5477 -- 261 2295 0.2083 0.2808 -- 100.0
X Ray Diffraction 2.5477 2.5997 -- 250 2259 0.21 0.2843 -- 100.0
X Ray Diffraction 2.5997 2.6562 -- 251 2290 0.2163 0.2869 -- 99.0
X Ray Diffraction 2.6562 2.718 -- 251 2279 0.2033 0.2667 -- 100.0
X Ray Diffraction 2.718 2.786 -- 240 2306 0.195 0.252 -- 100.0
X Ray Diffraction 2.786 2.8613 -- 247 2286 0.2017 0.2706 -- 100.0
X Ray Diffraction 2.8613 2.9454 -- 256 2286 0.184 0.2586 -- 100.0
X Ray Diffraction 2.9454 3.0405 -- 264 2279 0.1839 0.2578 -- 100.0
X Ray Diffraction 3.0405 3.1491 -- 241 2255 0.1711 0.2249 -- 100.0
X Ray Diffraction 3.1491 3.2751 -- 254 2308 0.1571 0.2416 -- 99.0
X Ray Diffraction 3.2751 3.4241 -- 250 2272 0.1483 0.2368 -- 100.0
X Ray Diffraction 3.4241 3.6045 -- 232 2303 0.1361 0.1991 -- 100.0
X Ray Diffraction 3.6045 3.8302 -- 242 2290 0.1316 0.1797 -- 100.0
X Ray Diffraction 3.8302 4.1256 -- 279 2281 0.1264 0.1846 -- 100.0
X Ray Diffraction 4.1256 4.5402 -- 255 2275 0.1138 0.1598 -- 100.0
X Ray Diffraction 4.5402 5.1959 -- 267 2305 0.1253 0.1903 -- 100.0
X Ray Diffraction 5.1959 6.5414 -- 266 2312 0.1705 0.2301 -- 100.0
X Ray Diffraction 6.5414 39.3275 -- 284 2258 0.1664 0.1944 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 3.373
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.373
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -6.7461
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.06
f_dihedral_angle_d 14.74
f_angle_d 0.982
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7710
Nucleic Acid Atoms 0
Heterogen Atoms 142
Solvent Atoms 509

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHENIX (phenix.refine: 1.7.1_743) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
HKL-2000 data collection