X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details PEG 8000, sodium cacodylate, pH 6.5, vapor diffusion, hanging drop, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.9 α = 90
b = 78.67 β = 105.91
c = 85.77 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- -- 2011-02-17
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.976300 ESRF ID23-1

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
2.1 82.48 95.9 -- 0.087 -- 2.4 34263 34263 -- -- --
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)
2.1 2.21 98.3 0.181 0.181 3.5 2.4 5092

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 2.1 36.214 -- 1.37 34263 34184 3427 95.38 -- 0.2566 0.2537 0.2821 --
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 2.1 2.13 -- 135 1296 0.2863 0.3416 -- 98.0
X Ray Diffraction 2.13 2.1618 -- 143 1320 0.2712 0.3172 -- 98.0
X Ray Diffraction 2.1618 2.1956 -- 147 1334 0.2765 0.3589 -- 98.0
X Ray Diffraction 2.1956 2.2316 -- 141 1288 0.3025 0.3212 -- 98.0
X Ray Diffraction 2.2316 2.27 -- 146 1231 0.5095 0.5446 -- 92.0
X Ray Diffraction 2.27 2.3113 -- 139 1301 0.306 0.3687 -- 97.0
X Ray Diffraction 2.3113 2.3558 -- 131 1308 0.2714 0.3297 -- 97.0
X Ray Diffraction 2.3558 2.4038 -- 145 1310 0.2472 0.3181 -- 97.0
X Ray Diffraction 2.4038 2.4561 -- 136 1319 0.2608 0.292 -- 98.0
X Ray Diffraction 2.4561 2.5132 -- 146 1288 0.2462 0.3523 -- 97.0
X Ray Diffraction 2.5132 2.576 -- 146 1286 0.2704 0.2924 -- 97.0
X Ray Diffraction 2.576 2.6457 -- 128 1331 0.2786 0.3074 -- 96.0
X Ray Diffraction 2.6457 2.7235 -- 144 1255 0.3515 0.3785 -- 96.0
X Ray Diffraction 2.7235 2.8114 -- 138 1332 0.2729 0.2998 -- 96.0
X Ray Diffraction 2.8114 2.9118 -- 134 1275 0.249 0.2964 -- 96.0
X Ray Diffraction 2.9118 3.0283 -- 150 1271 0.2326 0.2593 -- 95.0
X Ray Diffraction 3.0283 3.1661 -- 150 1286 0.2349 0.2862 -- 96.0
X Ray Diffraction 3.1661 3.3329 -- 150 1265 0.2385 0.2585 -- 95.0
X Ray Diffraction 3.3329 3.5416 -- 157 1270 0.2871 0.287 -- 94.0
X Ray Diffraction 3.5416 3.8147 -- 152 1235 0.2288 0.2339 -- 94.0
X Ray Diffraction 3.8147 4.1981 -- 142 1255 0.2038 0.2248 -- 93.0
X Ray Diffraction 4.1981 4.8044 -- 140 1257 0.1628 0.1791 -- 92.0
X Ray Diffraction 4.8044 6.0484 -- 150 1255 0.189 0.2058 -- 93.0
X Ray Diffraction 6.0484 36.2191 -- 137 1189 0.2043 0.2283 -- 86.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.3701
Anisotropic B[1][1] 5.716
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -9.4238
Anisotropic B[2][2] -9.0141
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.2982
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 16.897
f_plane_restr 0.006
f_chiral_restr 0.09
f_angle_d 1.214
f_bond_d 0.012
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4686
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 214

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
phenix refinement
Phaser molecular replacement
SCALA version: 3.3.16 data reduction
Mosflm data collection