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PanDDA analysis group deposition -- Crystal structure of PTP1B in complex with FMOPL000619a
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 0.1 M HEPES, 0.3 M magnesium acetate, 13.5% PEG 8000, 2% ethanol, and 1 mM BME
Crystal Properties Matthews coefficient Solvent content 3.29 62.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.56 α = 90 b = 89.56 β = 90 c = 106.27 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 278 PIXEL DECTRIS PILATUS 6M 2017-06-26 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97625 Diamond I03
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 1.94 62.65 100 0.098 0.105 0.999 10.83 36996 -3 43.771
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 1.94 1.99 100 1.34 1.436 0.51 1.17
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 1.94 44.82 35538 1458 99.95 0.1619 0.1605 0.1994 0.1966 0.2252 RANDOM 44.16
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 r_dihedral_angle_2_deg 36.061 r_dihedral_angle_4_deg 23.362 r_dihedral_angle_3_deg 16.517 r_dihedral_angle_1_deg 6.272 r_mcangle_it 4.856 r_mcbond_it 4.103 r_mcbond_other 3.995 r_angle_refined_deg 1.643 r_angle_other_deg 1.476 r_chiral_restr 0.086
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.061 r_dihedral_angle_4_deg 23.362 r_dihedral_angle_3_deg 16.517 r_dihedral_angle_1_deg 6.272 r_mcangle_it 4.856 r_mcbond_it 4.103 r_mcbond_other 3.995 r_angle_refined_deg 1.643 r_angle_other_deg 1.476 r_chiral_restr 0.086 r_bond_refined_d 0.023 r_gen_planes_refined 0.012 r_gen_planes_other 0.008 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2297 Nucleic Acid Atoms Solvent Atoms 179 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction DIMPLE phasing