☰ Navigation Tabs
Crystal Structure of EV71 3C Proteinase in complex with compound 8
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4GHQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 289 100mM Tris, 25% PEG4000, 0.8M lithium chloride
Crystal Properties Matthews coefficient Solvent content 1.97 32.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.945 α = 90 b = 64.976 β = 90 c = 75.606 γ = 90
Symmetry Space Group C 2 2 21
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 2013-08-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.4 50 95.8 5.4 3.5 5870
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.4 95.8
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 4GHQ 2.4 39.03 5870 290 96.07 0.21137 0.2083 0.2143 0.27577 0.2805 RANDOM 37.288
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] -1.11 3.69 -2.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.315 r_dihedral_angle_4_deg 20.096 r_dihedral_angle_3_deg 16.79 r_long_range_B_other 8.025 r_long_range_B_refined 8.023 r_dihedral_angle_1_deg 6.551 r_scangle_other 4.523 r_mcangle_it 4.222 r_mcangle_other 4.22 r_scbond_it 2.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.315 r_dihedral_angle_4_deg 20.096 r_dihedral_angle_3_deg 16.79 r_long_range_B_other 8.025 r_long_range_B_refined 8.023 r_dihedral_angle_1_deg 6.551 r_scangle_other 4.523 r_mcangle_it 4.222 r_mcangle_other 4.22 r_scbond_it 2.77 r_scbond_other 2.769 r_mcbond_other 2.661 r_mcbond_it 2.66 r_angle_refined_deg 1.69 r_angle_other_deg 0.97 r_chiral_restr 0.084 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 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 1401 Nucleic Acid Atoms Solvent Atoms 44 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling PDB_EXTRACT data extraction