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Peptide corresponding to residues 170-175 of human prion
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Other idealized 6 residue beta strand
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 200 mM Hepes, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 14.002 α = 75.23 b = 4.879 β = 75.88 c = 15.1 γ = 78.89
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 315 2006-09-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 0.85 90 82.1 0.036 48.7 3.6 2681 2681 -3 4.4
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) 0.85 0.88 33.5 0.078 2.3 107
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 idealized 6 residue beta strand 0.85 14.29 2680 2680 134 82.11 0.073 0.073 0.073 0.0853 0.078 0.0808 RANDOM 1.335
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 -0.06 -0.04 0.06 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 52.08 r_dihedral_angle_3_deg 8.571 r_dihedral_angle_1_deg 7.839 r_sphericity_free 1.686 r_angle_refined_deg 1.019 r_scangle_it 0.857 r_rigid_bond_restr 0.688 r_scbond_it 0.651 r_sphericity_bonded 0.569 r_angle_other_deg 0.505
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 52.08 r_dihedral_angle_3_deg 8.571 r_dihedral_angle_1_deg 7.839 r_sphericity_free 1.686 r_angle_refined_deg 1.019 r_scangle_it 0.857 r_rigid_bond_restr 0.688 r_scbond_it 0.651 r_sphericity_bonded 0.569 r_angle_other_deg 0.505 r_mcangle_it 0.484 r_mcbond_it 0.394 r_nbd_other 0.19 r_symmetry_vdw_other 0.19 r_nbtor_refined 0.176 r_nbd_refined 0.081 r_symmetry_hbond_refined 0.081 r_chiral_restr 0.073 r_mcbond_other 0.073 r_nbtor_other 0.072 r_symmetry_vdw_refined 0.034 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 51 Nucleic Acid Atoms Solvent Atoms 5 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction BOS data collection