X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.6
Temperature 293.15
Details 15% PEG6000, 5% glycerol; Drop volume: 0.2ul; Protein proportion: 50%; Protein concentration: 6 mg/ml, pH 7.6, VAPOR DIFFUSION, SITTING DROP, temperature 293.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 34.14 α = 90
b = 61.85 β = 90
c = 139.06 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
CCD DECTRIS PILATUS 6M -- 2011-10-02
Diffraction Radiation
Monochromator Protocol
Si(111) monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 1.127 PETRA III, EMBL C/O DESY P13 (MX1)

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 61.85 96.9 0.113 -- -- 4.6 20020 19858 -- 3.0 24.44
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)
2.0 2.11 87.1 0.577 -- 2.5 3.1 --

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 2.01 37.09 -- 0.0 19706 19706 1004 96.68 0.2092 0.2092 0.2067 0.258 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 2.01 2.12 2614 144 2470 0.211 0.2625 -- 96.68
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.25
Anisotropic B[1][1] 0.0799
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.4656
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.3857
RMS Deviations
Key Refinement Restraint Deviation
f_other_torsion 2.95
f_omega_torsion 2.68
f_angle_deg 0.97
f_bond_d 0.01
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.325
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2582
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 150

Software

Computing
Computing Package Purpose
MXCuBE Data Collection
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
Phaser Structure Solution
BUSTER 2.11.2 Structure Refinement
Software
Software Name Purpose
BUSTER version: 2.11.2 refinement
Phenix refinement
Phaser model building
MXCuBE data collection