X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 291.0
Details 0.1 M KSCN, 30% PEG2000mme

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.54 α = 90
b = 77.15 β = 90
c = 78.69 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 ADSC QUANTUM 315r mirrors 2014-07-25
Diffraction Radiation
Monochromator Protocol
double crystal, Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.9952 SSRF BL17U

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
2.4 50 99.4 0.081 -- 41.0 7.0 -- 12885 -- -- 54.25
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)
2.4 2.44 100.0 0.841 -- -- 7.3 --

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 2.4 30.884 -- 1.35 -- 12819 926 98.55 -- 0.2117 0.2085 0.2504 Random selection
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 2.3857 2.5114 -- 142 1572 0.3053 0.4088 -- 94.0
X Ray Diffraction 2.5114 2.6687 -- 116 1674 0.284 0.3211 -- 100.0
X Ray Diffraction 2.6687 2.8746 -- 101 1745 0.2536 0.3356 -- 100.0
X Ray Diffraction 2.8746 3.1636 -- 156 1675 0.2461 0.2972 -- 100.0
X Ray Diffraction 3.1636 3.6208 -- 129 1718 0.2231 0.2821 -- 100.0
X Ray Diffraction 3.6208 4.5594 -- 131 1742 0.1851 0.2294 -- 100.0
X Ray Diffraction 4.5594 30.8861 -- 151 1767 0.1811 0.2043 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 73.7
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.05
f_plane_restr 0.005
f_dihedral_angle_d 17.572
f_angle_d 0.876
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1873
Nucleic Acid Atoms 0
Heterogen Atoms 29
Solvent Atoms 32

Software

Software
Software Name Purpose
DENZO data collection
SCALEPACK data scaling
MOLREP phasing
PHENIX refinement version: 1.10_2155
PDB_EXTRACT data extraction version: 3.20