X-RAY DIFFRACTION Experimental Data & Validation


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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 (QUANTUM 315R) ADSC 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_dihedral_angle_d 21.42
f_angle_d 1.268
f_bond_d 0.01
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

Computing
Computing Package Purpose
XDS, VERSION JANUARY 30, 2009 Data Reduction (intensity integration)
SCALA, VERSION 3.3.16 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHASER model building