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Insulin with proline analog HyP at position B28 in the R6 state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EV3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 295 300 mM Tris, 17 mM zinc acetate, 1% phenol, 1.95 M sodium citrate
Crystal Properties Matthews coefficient Solvent content 2.07 40.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.757 α = 90 b = 77.757 β = 90 c = 40.397 γ = 120
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 2015-08-03 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 Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.007 38.879 97 0.063 0.076 0.041 7.4 3 5892 5892
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 2.01 2.12 87.8 1.347 0.5 2.5
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1EV3 2.2 38.88 4307 253 98.47 0.16123 0.1581 0.21791 0.2343 RANDOM 65.757
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] -0.12 -0.06 -0.12 0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.247 r_dihedral_angle_4_deg 20.494 r_dihedral_angle_3_deg 17.332 r_long_range_B_refined 10.068 r_long_range_B_other 10.063 r_dihedral_angle_1_deg 7.458 r_scangle_other 6.782 r_mcangle_it 5.338 r_mcangle_other 5.332 r_scbond_it 4.152
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.247 r_dihedral_angle_4_deg 20.494 r_dihedral_angle_3_deg 17.332 r_long_range_B_refined 10.068 r_long_range_B_other 10.063 r_dihedral_angle_1_deg 7.458 r_scangle_other 6.782 r_mcangle_it 5.338 r_mcangle_other 5.332 r_scbond_it 4.152 r_scbond_other 4.148 r_mcbond_it 3.315 r_mcbond_other 3.315 r_angle_refined_deg 1.836 r_angle_other_deg 0.948 r_chiral_restr 0.115 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 750 Nucleic Acid Atoms Solvent Atoms 17 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PHASER phasing PDB_EXTRACT data extraction