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PanDDA analysis group deposition -- Crystal structure of PTP1B in complex with FMOMB000293a
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 3.35 63.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.92 α = 90 b = 89.92 β = 90 c = 107.04 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 2.54 62.97 99.4 0.191 0.213 0.99 6.27 16872 -3 53.557
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 2.54 2.61 99.7 1.308 1.452 0.526 1
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 2.54 45 16208 664 99.32 0.1798 0.1775 0.2241 0.2368 0.2722 RANDOM 53.386
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] -0.03 -0.01 -0.03 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.011 r_dihedral_angle_4_deg 22.903 r_dihedral_angle_3_deg 17.201 r_dihedral_angle_1_deg 6.548 r_mcangle_it 5.675 r_mcbond_it 3.563 r_mcbond_other 3.548 r_angle_refined_deg 1.474 r_angle_other_deg 1.227 r_chiral_restr 0.065
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.011 r_dihedral_angle_4_deg 22.903 r_dihedral_angle_3_deg 17.201 r_dihedral_angle_1_deg 6.548 r_mcangle_it 5.675 r_mcbond_it 3.563 r_mcbond_other 3.548 r_angle_refined_deg 1.474 r_angle_other_deg 1.227 r_chiral_restr 0.065 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2297 Nucleic Acid Atoms Solvent Atoms 176 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction DIMPLE phasing