X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details 0.085M HEPES pH 7.5, 15% glycerol, 1.7% polyethylene glycol 400, 1.7M ammonium sulfate

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 83.38 α = 90
b = 83.38 β = 90
c = 221.83 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD Vertical focusing mirror; double crystal Si(111) monochromator 2015-03-25
Diffraction Radiation
Monochromator Protocol
double crystal Si(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL14-1 0.95369,0.9793,0.9791 SSRL BL14-1

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
2.65 29.02 99.2 -- 0.149 4.786 14.1 13863 13863 -- -- --
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)
2.65 2.72 99.0 1.31 1.31 0.6 14.5 995

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
MAD 2.65 29.018 -- 0.0 -- 13863 690 98.89 -- 0.193 0.1917 0.2194 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 2.65 2.86 -- 148 2635 0.2216 0.2056 -- 98.89
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 69.9986
Anisotropic B[1][1] -0.5014
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.5014
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.0027
RMS Deviations
Key Refinement Restraint Deviation
t_omega_torsion 3.17
t_angle_deg 1.15
t_other_torsion 2.97
t_bond_d 0.01
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.401
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2180
Nucleic Acid Atoms 0
Heterogen Atoms 84
Solvent Atoms 23

Software

Software
Software Name Purpose
PDB_EXTRACT data extraction version: 3.10
MOSFLM data reduction
SCALA data scaling version: 3.3.20
SHARP phasing
SHELX phasing
BUSTER refinement version: 2.10.2
SHELXD phasing