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Crystal structure of the complex between Slitrk2 LRR1 and PTP delta Ig1-Fn1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2YD6 2YD6, 2YD9, 2DJU, and 1OZN experimental model PDB 2YD9 2YD6, 2YD9, 2DJU, and 1OZN experimental model PDB 2DJU 2YD6, 2YD9, 2DJU, and 1OZN experimental model PDB 1OZN 2YD6, 2YD9, 2DJU, and 1OZN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 293 15% PEG4000, 0.1 M sodium acetate, 0.1 M MES
Crystal Properties Matthews coefficient Solvent content 3.24 62.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.227 α = 90 b = 91.308 β = 90 c = 123.389 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2014-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0000 SPring-8 BL41XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.35 50 99.2 0.13 14.3 9.5 14509
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.35 3.41 97.2 0.407 1.9 5.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2YD6, 2YD9, 2DJU, and 1OZN 3.358 45.654 1.48 14477 728 99.08 0.2373 0.2346 0.2396 0.2865 0.2894
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.147 f_angle_d 1.113 f_chiral_restr 0.04 f_bond_d 0.005 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4891 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 56
Software Software Software Name Purpose PHENIX refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing