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Crystal structure of EV71 3C Proteinase in complex with Compound 2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4GHQ PDB ENTRY 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 1.82 32.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.119 α = 90 b = 64.564 β = 90 c = 75.334 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 CCD ADSC QUANTUM 315r 2011-11-01 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) 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 2.75 50 92.3 0.1325 4.6 3.48 3961
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 2.75 2.85 96.2 0.3977 1.1 3.45
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 PDB ENTRY 4GHQ 2.75 20.29 3934 182 92 0.215 0.211 0.2132 0.282 0.281 RANDOM 35.16
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] 0.33 -0.4 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.274 r_dihedral_angle_3_deg 22.881 r_dihedral_angle_4_deg 21.937 r_dihedral_angle_1_deg 6.066 r_angle_refined_deg 1.487 r_angle_other_deg 0.904 r_chiral_restr 0.085 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.274 r_dihedral_angle_3_deg 22.881 r_dihedral_angle_4_deg 21.937 r_dihedral_angle_1_deg 6.066 r_angle_refined_deg 1.487 r_angle_other_deg 0.904 r_chiral_restr 0.085 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other 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 13 Heterogen Atoms 29
Software Software Software Name Purpose AUTOMAR data reduction AUTOMAR data scaling PHASER phasing REFMAC refinement