X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 0.1 M Tris-HCl, 1.5 M ammonium sulfate, 10% glycerol, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 34.53 α = 90
b = 66.83 β = 96.1
c = 63.94 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 -- 2011-11-25
Diffraction Radiation
Monochromator Protocol
channel-cut Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 1.03320 ESRF ID29

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
1.12 63.6 93.8 0.032 -- -- 2.7 110718 103662 1.0 1.0 6.9
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)
1.12 1.18 81.6 0.092 -- 8.8 2.3 --

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 1.12 29.579 -- 1.34 103696 103652 5191 93.62 -- 0.1513 0.1509 0.1597 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 1.12 1.1327 -- 111 2418 0.1613 0.1673 -- 69.0
X Ray Diffraction 1.1327 1.1461 -- 130 2719 0.151 0.1571 -- 77.0
X Ray Diffraction 1.1461 1.16 -- 160 2927 0.146 0.1436 -- 84.0
X Ray Diffraction 1.16 1.1747 -- 186 3120 0.1417 0.1539 -- 90.0
X Ray Diffraction 1.1747 1.1902 -- 164 3336 0.1414 0.1577 -- 95.0
X Ray Diffraction 1.1902 1.2065 -- 199 3285 0.1442 0.1434 -- 95.0
X Ray Diffraction 1.2065 1.2237 -- 164 3330 0.1394 0.16 -- 95.0
X Ray Diffraction 1.2237 1.242 -- 192 3285 0.1413 0.1524 -- 95.0
X Ray Diffraction 1.242 1.2614 -- 191 3302 0.1419 0.1607 -- 94.0
X Ray Diffraction 1.2614 1.2821 -- 180 3179 0.1427 0.1824 -- 91.0
X Ray Diffraction 1.2821 1.3042 -- 170 3247 0.1416 0.1443 -- 94.0
X Ray Diffraction 1.3042 1.3279 -- 187 3384 0.1402 0.1593 -- 96.0
X Ray Diffraction 1.3279 1.3534 -- 185 3309 0.1453 0.1571 -- 96.0
X Ray Diffraction 1.3534 1.3811 -- 161 3409 0.1435 0.1551 -- 96.0
X Ray Diffraction 1.3811 1.4111 -- 205 3283 0.1397 0.1472 -- 96.0
X Ray Diffraction 1.4111 1.4439 -- 157 3361 0.1394 0.139 -- 95.0
X Ray Diffraction 1.4439 1.48 -- 167 3241 0.138 0.1576 -- 93.0
X Ray Diffraction 1.48 1.5201 -- 172 3381 0.1342 0.1379 -- 96.0
X Ray Diffraction 1.5201 1.5648 -- 165 3399 0.1264 0.1402 -- 96.0
X Ray Diffraction 1.5648 1.6153 -- 181 3365 0.1302 0.1476 -- 97.0
X Ray Diffraction 1.6153 1.673 -- 180 3439 0.1356 0.1348 -- 98.0
X Ray Diffraction 1.673 1.74 -- 155 3415 0.1414 0.1595 -- 96.0
X Ray Diffraction 1.74 1.8192 -- 198 3253 0.1449 0.1507 -- 93.0
X Ray Diffraction 1.8192 1.9151 -- 180 3432 0.1444 0.1534 -- 98.0
X Ray Diffraction 1.9151 2.035 -- 158 3465 0.1543 0.1716 -- 98.0
X Ray Diffraction 2.035 2.1921 -- 160 3481 0.1544 0.1549 -- 99.0
X Ray Diffraction 2.1921 2.4126 -- 171 3440 0.1579 0.1693 -- 97.0
X Ray Diffraction 2.4126 2.7615 -- 186 3338 0.1708 0.1608 -- 95.0
X Ray Diffraction 2.7615 3.4783 -- 182 3476 0.1693 0.1883 -- 98.0
X Ray Diffraction 3.4783 29.5889 -- 194 3442 0.1596 0.1626 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -6.0E-4
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0184
Anisotropic B[2][2] -0.011
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0116
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.083
f_dihedral_angle_d 11.811
f_angle_d 1.146
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2378
Nucleic Acid Atoms 0
Heterogen Atoms 65
Solvent Atoms 380

Software

Computing
Computing Package Purpose
MXCuBE Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
MOLREP Structure Solution
PHENIX (phenix.refine: 1.7.2_869) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.2_869) refinement
MOLREP model building
MXCuBE data collection