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PanDDA Analysis group deposition -- Crystal structure of PTP1B in complex with FMOPL000605a
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 0.3 M magnesium acetate, 0.1 M HEPES pH 7.5, 0.1% beta-mercaptoethanol, 13-14% PEG 8000, 2% ethanol
Crystal Properties Matthews coefficient Solvent content 3.37 63.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.181 α = 90 b = 90.181 β = 90 c = 107.06 γ = 120
Symmetry Space Group P 31 2 1
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 2016-09-25 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92819 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) 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 1.8 63.095 99.9 0.065 0.072 0.999 13.51 89533 -3 40.466
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.91 99.4 1.096 1.238 0.516 1.12
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.8 45.09 44930 1839 99.92 0.1999 0.1986 0.2123 0.2305 0.2403 RANDOM 42.096
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] 0.55 0.27 0.55 -1.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.592 r_dihedral_angle_4_deg 21.576 r_dihedral_angle_3_deg 15.665 r_dihedral_angle_1_deg 6.731 r_mcangle_it 4.845 r_mcbond_other 3.888 r_mcbond_it 3.884 r_angle_refined_deg 1.63 r_angle_other_deg 1.381 r_chiral_restr 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.592 r_dihedral_angle_4_deg 21.576 r_dihedral_angle_3_deg 15.665 r_dihedral_angle_1_deg 6.731 r_mcangle_it 4.845 r_mcbond_other 3.888 r_mcbond_it 3.884 r_angle_refined_deg 1.63 r_angle_other_deg 1.381 r_chiral_restr 0.09 r_bond_refined_d 0.037 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2297 Nucleic Acid Atoms Solvent Atoms 245 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction PHASER phasing XDS data reduction