X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 0.1 M Imidazole pH 6.5, 8.25% PEG 8000, 1% MPD , VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.22 α = 90
b = 79.11 β = 99.65
c = 69.29 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2010-08-08
Diffraction Radiation
Monochromator Protocol
SI 111. ROSENBAUM-ROCK DOUBLE-CRYSTAL MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM

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
1.4 50 95.2 -- -- -- -- 130975 130975 1.0 1.0 --
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)
1.4 1.45 69.6 0.449 -- 2.0 2.7 9536

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 1.395 22.695 -- 0.0 122330 122330 6166 88.91 0.1514 0.1514 0.1505 0.1672 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 1.3955 1.4113 -- 102 2048 0.224 0.2351 -- 47.0
X Ray Diffraction 1.4113 1.4279 -- 155 2589 0.2197 0.2501 -- 60.0
X Ray Diffraction 1.4279 1.4454 -- 125 2844 0.2149 0.2404 -- 65.0
X Ray Diffraction 1.4454 1.4636 -- 173 2995 0.205 0.2294 -- 70.0
X Ray Diffraction 1.4636 1.4829 -- 173 3220 0.2045 0.2152 -- 74.0
X Ray Diffraction 1.4829 1.5032 -- 194 3389 0.1957 0.2342 -- 78.0
X Ray Diffraction 1.5032 1.5247 -- 207 3598 0.1914 0.2152 -- 82.0
X Ray Diffraction 1.5247 1.5474 -- 172 3726 0.177 0.1842 -- 85.0
X Ray Diffraction 1.5474 1.5716 -- 210 3787 0.1767 0.2112 -- 88.0
X Ray Diffraction 1.5716 1.5974 -- 207 3873 0.167 0.1942 -- 89.0
X Ray Diffraction 1.5974 1.6249 -- 209 3923 0.1629 0.1978 -- 91.0
X Ray Diffraction 1.6249 1.6544 -- 214 3955 0.1571 0.1927 -- 91.0
X Ray Diffraction 1.6544 1.6863 -- 244 3970 0.151 0.1786 -- 92.0
X Ray Diffraction 1.6863 1.7207 -- 195 4049 0.1478 0.1637 -- 93.0
X Ray Diffraction 1.7207 1.7581 -- 205 4074 0.1422 0.1683 -- 93.0
X Ray Diffraction 1.7581 1.7989 -- 216 4083 0.1377 0.1879 -- 94.0
X Ray Diffraction 1.7989 1.8439 -- 220 4051 0.1372 0.1426 -- 94.0
X Ray Diffraction 1.8439 1.8937 -- 222 4098 0.1463 0.1535 -- 94.0
X Ray Diffraction 1.8937 1.9494 -- 228 4189 0.1435 0.164 -- 96.0
X Ray Diffraction 1.9494 2.0123 -- 231 4263 0.1392 0.1659 -- 98.0
X Ray Diffraction 2.0123 2.0842 -- 207 4329 0.1403 0.155 -- 99.0
X Ray Diffraction 2.0842 2.1676 -- 223 4322 0.1387 0.1666 -- 99.0
X Ray Diffraction 2.1676 2.2662 -- 229 4292 0.1334 0.1494 -- 99.0
X Ray Diffraction 2.2662 2.3855 -- 266 4272 0.135 0.1407 -- 99.0
X Ray Diffraction 2.3855 2.5348 -- 220 4274 0.1403 0.1383 -- 98.0
X Ray Diffraction 2.5348 2.7302 -- 217 4341 0.1475 0.1757 -- 99.0
X Ray Diffraction 2.7302 3.0044 -- 221 4378 0.1511 0.161 -- 99.0
X Ray Diffraction 3.0044 3.4378 -- 212 4380 0.1483 0.165 -- 100.0
X Ray Diffraction 3.4378 4.3264 -- 253 4381 0.1422 0.1559 -- 100.0
X Ray Diffraction 4.3264 22.6977 -- 216 4471 0.1587 0.1684 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -1.379
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -2.3447
Anisotropic B[2][2] -2.0272
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.4062
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.008
f_chiral_restr 0.084
f_dihedral_angle_d 11.591
f_angle_d 1.331
f_bond_d 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4814
Nucleic Acid Atoms 0
Heterogen Atoms 32
Solvent Atoms 909

Software

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