X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 295.0
Details 55% ethylene glycol, 100 mM tris, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 35.1 α = 69.43
b = 60.75 β = 75.88
c = 61.43 γ = 78.06
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD NOIR-1 -- 2012-10-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 4.2.2 1.0 ALS 4.2.2

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
2.3 19.68 97.8 -- 0.029 -- 2.0 -- 19834 -- -- 44.5
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)
2.3 2.42 97.2 -- 0.253 3.1 2.0 2873

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 2.3 19.683 -- 1.97 -- 19816 1998 97.83 -- 0.2095 0.205 0.2495 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 2.3 2.3574 -- 132 1265 0.2587 0.317 -- 96.0
X Ray Diffraction 2.3574 2.4211 -- 145 1254 0.2598 0.3107 -- 98.0
X Ray Diffraction 2.4211 2.4922 -- 139 1276 0.2552 0.314 -- 97.0
X Ray Diffraction 2.4922 2.5724 -- 147 1257 0.2515 0.295 -- 98.0
X Ray Diffraction 2.5724 2.6642 -- 143 1280 0.2262 0.3045 -- 97.0
X Ray Diffraction 2.6642 2.7706 -- 142 1272 0.2405 0.2864 -- 98.0
X Ray Diffraction 2.7706 2.8963 -- 141 1288 0.2456 0.3019 -- 98.0
X Ray Diffraction 2.8963 3.0485 -- 143 1264 0.2379 0.2825 -- 98.0
X Ray Diffraction 3.0485 3.2387 -- 137 1291 0.2326 0.299 -- 98.0
X Ray Diffraction 3.2387 3.4875 -- 143 1269 0.2266 0.2703 -- 98.0
X Ray Diffraction 3.4875 3.8361 -- 140 1278 0.2082 0.2392 -- 98.0
X Ray Diffraction 3.8361 4.3858 -- 150 1278 0.1726 0.2053 -- 98.0
X Ray Diffraction 4.3858 5.5055 -- 149 1262 0.191 0.2361 -- 99.0
X Ray Diffraction 5.5055 19.6837 -- 147 1284 0.1612 0.2006 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 57.6
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.059
f_dihedral_angle_d 14.685
f_bond_d 0.009
f_plane_restr 0.008
f_angle_d 1.237
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2706
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 40

Software

Software
Software Name Purpose
PHASER phasing
PHENIX refinement version: (phenix.refine: 1.8.4_1496)
XDS data reduction
XDS data scaling