X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 293.0
Details 22% PEG Smear Broad 0.1 M MES pH 6.5 Protein sample buffer 20 mM HEPES, pH 7.4, 150 mM NaCL supplemented with 50 mM citrate pH 7.4

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 99.26 α = 90
b = 106.42 β = 102.11
c = 105.05 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2018-04-07
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.97242 ESRF ID23-1

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
1.5 50 97.4 -- -- -- 3.47 -- 332084 -- -- 21.52
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)
1.5 1.59 95.6 -- -- 0.78 3.46 --

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 1.5 48.53 -- 0.0 -- 332071 16515 97.6 -- 0.195 0.194 0.211 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 1.5 1.54 -- 1234 22501 0.221 0.231 0.0 94.85
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.67
Anisotropic B[1][1] 1.4385
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.4348
Anisotropic B[2][2] 0.0265
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.4651
RMS Deviations
Key Refinement Restraint Deviation
t_bond_d 0.01
t_other_torsion 16.49
t_omega_torsion 3.42
t_angle_deg 0.95
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.21
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15342
Nucleic Acid Atoms 0
Heterogen Atoms 114
Solvent Atoms 1281

Software

Software
Software Name Purpose
BUSTER refinement version: 2.10.2
XDS data reduction
Aimless data scaling
PHASER phasing