X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 0.1 M BIS-TRIS PROPANE PH 6.5, 0.3-0.9 SODIUM POTASSIUM TARTRATE, 0.0006 M PROTEIN, 0.010 M LANTHANIDE COMPLEX, 293 K, 5 DAYS

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.99 α = 90
b = 57.99 β = 90
c = 150.18 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r MIRRORS 2010-11-27
Diffraction Radiation
Monochromator Protocol
EITHER 111 OR 311 SILICON SINGLE CRISTALS MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM30A -- 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
1.3 45.9 99.9 0.05 -- -- 6.6 -- 64239 -- 3.0 10.0
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)
1.3 1.37 99.4 0.45 -- 1.7 6.5 --

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 1.298 28.994 -- 1.34 -- 64138 3207 99.88 -- 0.1362 0.135 0.1574 --
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 1.2983 1.3177 -- 134 2554 0.1946 0.2113 -- 98.0
X Ray Diffraction 1.3177 1.3382 -- 137 2599 0.1711 0.2226 -- 100.0
X Ray Diffraction 1.3382 1.3602 -- 137 2592 0.1666 0.1853 -- 100.0
X Ray Diffraction 1.3602 1.3836 -- 137 2620 0.1488 0.1772 -- 100.0
X Ray Diffraction 1.3836 1.4088 -- 137 2599 0.1415 0.1857 -- 100.0
X Ray Diffraction 1.4088 1.4359 -- 137 2611 0.1303 0.1506 -- 100.0
X Ray Diffraction 1.4359 1.4652 -- 139 2621 0.1215 0.157 -- 100.0
X Ray Diffraction 1.4652 1.4971 -- 137 2599 0.1129 0.1578 -- 100.0
X Ray Diffraction 1.4971 1.5319 -- 138 2628 0.1086 0.149 -- 100.0
X Ray Diffraction 1.5319 1.5702 -- 138 2637 0.1028 0.1177 -- 100.0
X Ray Diffraction 1.5702 1.6126 -- 139 2617 0.0961 0.1238 -- 100.0
X Ray Diffraction 1.6126 1.6601 -- 138 2633 0.0999 0.1456 -- 100.0
X Ray Diffraction 1.6601 1.7137 -- 138 2624 0.0994 0.1268 -- 100.0
X Ray Diffraction 1.7137 1.7749 -- 139 2627 0.1046 0.1352 -- 100.0
X Ray Diffraction 1.7749 1.846 -- 138 2630 0.1089 0.1473 -- 100.0
X Ray Diffraction 1.846 1.93 -- 140 2660 0.1103 0.1305 -- 100.0
X Ray Diffraction 1.93 2.0317 -- 140 2649 0.1101 0.1068 -- 100.0
X Ray Diffraction 2.0317 2.1589 -- 140 2687 0.1209 0.1551 -- 100.0
X Ray Diffraction 2.1589 2.3256 -- 141 2669 0.1246 0.1474 -- 100.0
X Ray Diffraction 2.3256 2.5595 -- 141 2689 0.1427 0.1568 -- 100.0
X Ray Diffraction 2.5595 2.9295 -- 144 2719 0.1525 0.1835 -- 100.0
X Ray Diffraction 2.9295 3.6897 -- 144 2749 0.1519 0.161 -- 100.0
X Ray Diffraction 3.6897 29.0012 -- 154 2918 0.1699 0.1839 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.9
Anisotropic B[1][1] 0.3483
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.3483
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.6966
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.083
f_bond_d 0.01
f_angle_d 1.268
f_dihedral_angle_d 21.42
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1551
Nucleic Acid Atoms 0
Heterogen Atoms 58
Solvent Atoms 376

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction version: JANUARY 30 2009
SCALA data scaling version: 3.316
PHASER phasing