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Insulin with proline analog HyP at position B28 in the T2 state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3T2A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 295 300 mM Tris, 0.5 mM zinc acetate, 8.5% acetone, 0.5 M sodium citrate
Crystal Properties Matthews coefficient Solvent content 3.42 64.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.245 α = 90 b = 78.245 β = 90 c = 78.245 γ = 90
Symmetry Space Group I 21 3
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 2015-06-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.9795 SSRL BL12-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.33 55.33 99.4 0.054 0.998 17.4 5.9 18244
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 1.33 1.36 88.8 0.276 4 3.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 3T2A 1.33 55.33 17298 939 99.53 0.12651 0.12457 0.124 0.16383 0.1632 RANDOM 19.801
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_sphericity_free 44.192 r_sphericity_bonded 17.514 r_long_range_B_refined 10.526 r_long_range_B_other 10.514 r_rigid_bond_restr 8.662 r_scangle_other 5.973 r_scbond_it 5.551 r_scbond_other 5.551 r_mcangle_it 3.312 r_mcangle_other 3.306
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 44.192 r_sphericity_bonded 17.514 r_long_range_B_refined 10.526 r_long_range_B_other 10.514 r_rigid_bond_restr 8.662 r_scangle_other 5.973 r_scbond_it 5.551 r_scbond_other 5.551 r_mcangle_it 3.312 r_mcangle_other 3.306 r_mcbond_it 3.185 r_mcbond_other 3.175 r_angle_refined_deg 1.386 r_angle_other_deg 0.94 r_chiral_restr 0.12 r_bond_refined_d 0.034 r_gen_planes_refined 0.018 r_gen_planes_other 0.011 r_bond_other_d 0.003 r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 398 Nucleic Acid Atoms Solvent Atoms 55 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction PHASER phasing