X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.3
Temperature 277.0
Details 0.1M hepes, 0.2M MgCl2, 35%peg400, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 140.78 α = 90
b = 140.78 β = 90
c = 42.76 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 270 -- 2012-04-26
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X26C 0.9795 NSLS X26C

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
1.45 50 90.5 0.044 -- -- 12.8 -- 70049 -- 1.0 11.32
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)
1.45 1.48 52.6 0.18 -- 10.0 11.7 2020

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 1.45 28.156 -- 1.34 -- 70001 7038 90.8 -- 0.1178 0.1148 0.1449 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 1.45 1.4628 -- 128 1193 0.0818 0.1481 -- 52.0
X Ray Diffraction 1.4628 1.48 -- 143 1289 0.0844 0.142 -- 57.0
X Ray Diffraction 1.48 1.4981 -- 162 1409 0.0853 0.1475 -- 62.0
X Ray Diffraction 1.4981 1.517 -- 184 1600 0.0813 0.1395 -- 70.0
X Ray Diffraction 1.517 1.537 -- 214 1921 0.0827 0.139 -- 84.0
X Ray Diffraction 1.537 1.5581 -- 234 2056 0.0796 0.1517 -- 91.0
X Ray Diffraction 1.5581 1.5803 -- 230 2063 0.0861 0.1334 -- 89.0
X Ray Diffraction 1.5803 1.6039 -- 230 2058 0.0839 0.1378 -- 91.0
X Ray Diffraction 1.6039 1.629 -- 238 2125 0.0855 0.1508 -- 93.0
X Ray Diffraction 1.629 1.6557 -- 237 2101 0.0823 0.1551 -- 92.0
X Ray Diffraction 1.6557 1.6842 -- 245 2130 0.0885 0.1471 -- 94.0
X Ray Diffraction 1.6842 1.7148 -- 251 2183 0.0886 0.1305 -- 95.0
X Ray Diffraction 1.7148 1.7478 -- 235 2153 0.0884 0.1281 -- 95.0
X Ray Diffraction 1.7478 1.7835 -- 247 2182 0.0965 0.1411 -- 95.0
X Ray Diffraction 1.7835 1.8222 -- 246 2199 0.0966 0.1493 -- 97.0
X Ray Diffraction 1.8222 1.8646 -- 247 2216 0.0991 0.1374 -- 96.0
X Ray Diffraction 1.8646 1.9112 -- 248 2222 0.1025 0.1491 -- 97.0
X Ray Diffraction 1.9112 1.9629 -- 247 2230 0.107 0.1312 -- 97.0
X Ray Diffraction 1.9629 2.0207 -- 244 2217 0.1062 0.1305 -- 97.0
X Ray Diffraction 2.0207 2.0859 -- 249 2265 0.1033 0.1438 -- 98.0
X Ray Diffraction 2.0859 2.1604 -- 250 2234 0.1059 0.1281 -- 96.0
X Ray Diffraction 2.1604 2.2468 -- 255 2244 0.103 0.1352 -- 97.0
X Ray Diffraction 2.2468 2.3491 -- 254 2291 0.1076 0.1368 -- 99.0
X Ray Diffraction 2.3491 2.4728 -- 255 2277 0.11 0.1433 -- 98.0
X Ray Diffraction 2.4728 2.6277 -- 254 2288 0.1158 0.1409 -- 98.0
X Ray Diffraction 2.6277 2.8304 -- 251 2307 0.1193 0.1374 -- 98.0
X Ray Diffraction 2.8304 3.1149 -- 259 2308 0.1313 0.156 -- 98.0
X Ray Diffraction 3.1149 3.5648 -- 260 2351 0.1421 0.1581 -- 99.0
X Ray Diffraction 3.5648 4.4884 -- 264 2370 0.1253 0.137 -- 99.0
X Ray Diffraction 4.4884 28.1613 -- 277 2481 0.1664 0.1767 -- 97.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.079
f_dihedral_angle_d 14.683
f_angle_d 1.251
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3162
Nucleic Acid Atoms 0
Heterogen Atoms 65
Solvent Atoms 590

Software

Computing
Computing Package Purpose
CBASS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8_1069) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8_1069) refinement
PHASER model building
CBASS data collection