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PanDDA Analysis group deposition -- Crystal structure of PTP1B in complex with XST00000046b
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 3.29 62.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.509 α = 90 b = 89.509 β = 90 c = 106.208 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 1.71 62.614 99.9 0.063 0.071 0.998 12.19 102581 -3 37.562
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 1.71 1.82 99.7 0.957 1.097 0.512 1.06
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 1.71 62.61 51383 2105 99.97 0.1974 0.1962 0.2292 0.2271 0.2554 RANDOM 36.229
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] 0.33 0.16 0.33 -1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.458 r_dihedral_angle_4_deg 21.132 r_dihedral_angle_3_deg 15.142 r_dihedral_angle_1_deg 6.629 r_mcangle_it 3.997 r_mcbond_other 3.996 r_mcbond_it 3.801 r_angle_refined_deg 1.695 r_angle_other_deg 1.414 r_chiral_restr 0.091
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.458 r_dihedral_angle_4_deg 21.132 r_dihedral_angle_3_deg 15.142 r_dihedral_angle_1_deg 6.629 r_mcangle_it 3.997 r_mcbond_other 3.996 r_mcbond_it 3.801 r_angle_refined_deg 1.695 r_angle_other_deg 1.414 r_chiral_restr 0.091 r_bond_refined_d 0.058 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2317 Nucleic Acid Atoms Solvent Atoms 234 Heterogen Atoms 74
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction PHASER phasing XDS data reduction