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Human NEP complexed with a bifunctional NEP/DPP IV inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DTM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 294 25% PEG 3350, 200mM ammonium sulfate, pH 7.5, VAPOR DIFFUSION, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.34 47.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.123 α = 90 b = 107.123 β = 90 c = 112.375 γ = 120
Symmetry Space Group P 32 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 IMAGE PLATE MAR scanner 345 mm plate mirrors 2003-08-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR591 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) 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 2.05 20 93.2 0.062 10.7 43955 43955 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.12 85.6 0.515 0.515 1.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) 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 1DTM 2.05 20 1 1 43955 41720 2227 93.27 0.20976 0.20672 0.2148 0.26766 0.2669 RANDOM 34.342
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] 0.08 0.04 0.08 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.684 r_scangle_it 1.659 r_mcangle_it 1.634 r_scbond_it 1.016 r_mcbond_it 0.994 r_angle_refined_deg 0.737 r_angle_other_deg 0.542 r_symmetry_vdw_other 0.478 r_symmetry_hbond_refined 0.476 r_symmetry_vdw_refined 0.474
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.684 r_scangle_it 1.659 r_mcangle_it 1.634 r_scbond_it 1.016 r_mcbond_it 0.994 r_angle_refined_deg 0.737 r_angle_other_deg 0.542 r_symmetry_vdw_other 0.478 r_symmetry_hbond_refined 0.476 r_symmetry_vdw_refined 0.474 r_nbd_other 0.286 r_nbd_refined 0.252 r_xyhbond_nbd_refined 0.213 r_metal_ion_refined 0.127 r_nbtor_other 0.094 r_chiral_restr 0.04 r_bond_refined_d 0.005 r_bond_other_d 0.005 r_gen_planes_refined 0.002 r_gen_planes_other 0.001 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5595 Nucleic Acid Atoms Solvent Atoms 291 Heterogen Atoms 81
Software Software Software Name Purpose REFMAC refinement MAR345dtb data collection DENZO data reduction SCALEPACK data scaling MERLOT phasing