X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 291.0
Details 0.1M MES, 6% PEG 20000, VAPOR DIFFUSION, HANGING DROP, temperature 291K, pH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.17 α = 90
b = 126.03 β = 90
c = 143.11 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
AREA DETECTOR ADSC QUANTUM 315 -- 2012-04-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-E 0.978 APS 24-ID-E

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
2.9 40 99.6 0.07 -- -- 3.6 27300 27191 0.0 1.5 --
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)
2.9 3.0 99.9 0.875 -- -- 3.7 --

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 3.0 36.991 -- 1.36 27300 24550 1227 99.57 -- 0.2004 0.1979 0.2504 --
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 3.0001 3.1201 -- 141 2517 0.3113 0.3513 -- 100.0
X Ray Diffraction 3.1201 3.2621 -- 146 2563 0.2667 0.2862 -- 100.0
X Ray Diffraction 3.2621 3.4339 -- 128 2562 0.2229 0.2897 -- 100.0
X Ray Diffraction 3.4339 3.6489 -- 106 2594 0.2036 0.2963 -- 100.0
X Ray Diffraction 3.6489 3.9303 -- 137 2578 0.2101 0.2789 -- 100.0
X Ray Diffraction 3.9303 4.3253 -- 129 2593 0.1772 0.2291 -- 100.0
X Ray Diffraction 4.3253 4.9499 -- 137 2609 0.1492 0.197 -- 100.0
X Ray Diffraction 4.9499 6.2315 -- 143 2616 0.1906 0.2338 -- 99.0
X Ray Diffraction 6.2315 36.9936 -- 160 2691 0.203 0.2508 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 70.3169
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.087
f_dihedral_angle_d 16.83
f_angle_d 1.295
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6088
Nucleic Acid Atoms 0
Heterogen Atoms 42
Solvent Atoms 56

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8_1065) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
phenix refinement
Phaser molecular replacement
SCALEPACK data reduction