X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 292.0
Details 17% PEG 600, 0.1M Tris-HCl pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 52.2 α = 90
b = 63.09 β = 90
c = 98.92 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-10-02
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM30A 0.9797 ESRF BM30A

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
1.38 30.05 99.0 0.061 -- -- 9.5 67174 67782 -- -3.0 11.9
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)
1.38 1.46 94.5 0.64 -- 3.3 8.0 9218

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 1.381 30.05 -- 1.99 67062 67049 5362 99.01 -- 0.156 0.154 0.1765 INHERITED
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 1.381 1.3968 -- 85 1730 0.225 0.3034 -- 82.0
X Ray Diffraction 1.3968 1.4132 -- 108 2091 0.1947 0.2482 -- 98.0
X Ray Diffraction 1.4132 1.4304 -- 103 2080 0.1861 0.2359 -- 99.0
X Ray Diffraction 1.4304 1.4485 -- 123 2079 0.1775 0.2351 -- 99.0
X Ray Diffraction 1.4485 1.4676 -- 141 2087 0.1666 0.2021 -- 99.0
X Ray Diffraction 1.4676 1.4877 -- 135 2073 0.1625 0.2289 -- 99.0
X Ray Diffraction 1.4877 1.5089 -- 135 2051 0.1428 0.2061 -- 99.0
X Ray Diffraction 1.5089 1.5315 -- 143 2089 0.1322 0.1973 -- 99.0
X Ray Diffraction 1.5315 1.5554 -- 151 2047 0.1363 0.2196 -- 100.0
X Ray Diffraction 1.5554 1.5809 -- 156 2107 0.1412 0.1723 -- 99.0
X Ray Diffraction 1.5809 1.6081 -- 163 2042 0.1437 0.1862 -- 100.0
X Ray Diffraction 1.6081 1.6374 -- 153 2087 0.1366 0.1755 -- 100.0
X Ray Diffraction 1.6374 1.6689 -- 184 2056 0.13 0.1853 -- 100.0
X Ray Diffraction 1.6689 1.7029 -- 159 2068 0.1387 0.1871 -- 100.0
X Ray Diffraction 1.7029 1.74 -- 168 2080 0.1357 0.1644 -- 100.0
X Ray Diffraction 1.74 1.7804 -- 189 2044 0.1437 0.1678 -- 100.0
X Ray Diffraction 1.7804 1.825 -- 210 2016 0.1441 0.159 -- 100.0
X Ray Diffraction 1.825 1.8743 -- 198 2065 0.1432 0.1599 -- 100.0
X Ray Diffraction 1.8743 1.9294 -- 196 2062 0.1465 0.1766 -- 100.0
X Ray Diffraction 1.9294 1.9917 -- 202 2042 0.1468 0.1775 -- 100.0
X Ray Diffraction 1.9917 2.0629 -- 211 2034 0.1458 0.185 -- 100.0
X Ray Diffraction 2.0629 2.1454 -- 221 2037 0.1412 0.1481 -- 100.0
X Ray Diffraction 2.1454 2.2431 -- 244 2017 0.1419 0.1607 -- 100.0
X Ray Diffraction 2.2431 2.3613 -- 182 2089 0.1406 0.1705 -- 100.0
X Ray Diffraction 2.3613 2.5091 -- 223 2055 0.1463 0.1678 -- 100.0
X Ray Diffraction 2.5091 2.7028 -- 216 2050 0.1573 0.1875 -- 100.0
X Ray Diffraction 2.7028 2.9745 -- 229 2074 0.1594 0.1809 -- 100.0
X Ray Diffraction 2.9745 3.4044 -- 220 2095 0.1551 0.1692 -- 100.0
X Ray Diffraction 3.4044 4.2873 -- 247 2090 0.1521 0.1528 -- 100.0
X Ray Diffraction 4.2873 30.061 -- 267 2150 0.1863 0.1977 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -1.112
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -7.666
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 8.778
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.01
f_plane_restr 0.009
f_dihedral_angle_d 15.105
f_angle_d 1.35
f_chiral_restr 0.108
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2547
Nucleic Acid Atoms 0
Heterogen Atoms 24
Solvent Atoms 557

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
PHASER phasing version: (phenix.automr_1.6.4-486)
PHENIX refinement version: (phenix.refine: 1.6.4_486)
XDS data reduction
XSCALE data scaling