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Bace-1 in complex with a norstatine type inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DM6 PDB ENTRY 3DM6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 299 16% PEG8000, 0.1M Citrate, 0.3M Lithium sulphate, 0.1M Sodium Chloride, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 299K
Crystal Properties Matthews coefficient Solvent content 3.06 59.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.762 α = 90 b = 102.774 β = 102.9 c = 101.427 γ = 90
Symmetry Space Group P 1 21 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 CCD ADSC QUANTUM 1 mirrors 2008-06-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 1.07225 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.6 99.015 91.9 0.114 0.114 7.3 2.7 46304 2 2 43.66
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) 2.6 2.74 93.7 0.386 0.386 1.7 2.7 6868
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 (All) 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 PDB ENTRY 3DM6 2.6 99.01 2 2 46304 45951 2320 100 0.21 0.21 0.207 0.2085 0.269 0.2698 RANDOM 24.289
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] 0.02 -0.03 0.11 -0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.073 r_dihedral_angle_4_deg 19.848 r_dihedral_angle_3_deg 18.383 r_dihedral_angle_1_deg 7.294 r_scangle_it 3.298 r_scbond_it 2.059 r_angle_refined_deg 1.659 r_mcangle_it 1.621 r_mcbond_it 0.957 r_nbtor_refined 0.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.073 r_dihedral_angle_4_deg 19.848 r_dihedral_angle_3_deg 18.383 r_dihedral_angle_1_deg 7.294 r_scangle_it 3.298 r_scbond_it 2.059 r_angle_refined_deg 1.659 r_mcangle_it 1.621 r_mcbond_it 0.957 r_nbtor_refined 0.322 r_symmetry_vdw_refined 0.264 r_nbd_refined 0.225 r_xyhbond_nbd_refined 0.154 r_symmetry_hbond_refined 0.15 r_chiral_restr 0.104 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8570 Nucleic Acid Atoms Solvent Atoms 76 Heterogen Atoms 156
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction DNA data collection