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Crystal Structure of Aichivirus A 2A protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7ZV1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.1M Hepes-NaOH pH7.5
20% PEG1500
0.1M CaCl2
Crystal Properties Matthews coefficient Solvent content 2.75 55.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 157.456 α = 90 b = 52.776 β = 108.632 c = 61.47 γ = 90
Symmetry Space Group C 1 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 CCD MARMOSAIC 225 mm CCD 2012-07-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.87260 ESRF ID23-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 2.83 49.76 95.4 0.158 0.116 6.6 3.6 11153
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.83 2.98 0.674 0.583
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 7ZV1 2.83 49.76 11151 543 95.397 0.241 0.24 0.2463 0.2507 0.2552 42.262
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] 2.583 0.807 -0.497 -2.143
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 11.055 r_dihedral_angle_3_deg 10.791 r_dihedral_angle_2_deg 10.451 r_lrange_it 6.084 r_lrange_other 6.084 r_dihedral_angle_1_deg 5.904 r_mcangle_it 2.617 r_mcangle_other 2.617 r_scangle_it 2.272 r_scangle_other 2.271
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 11.055 r_dihedral_angle_3_deg 10.791 r_dihedral_angle_2_deg 10.451 r_lrange_it 6.084 r_lrange_other 6.084 r_dihedral_angle_1_deg 5.904 r_mcangle_it 2.617 r_mcangle_other 2.617 r_scangle_it 2.272 r_scangle_other 2.271 r_mcbond_it 1.503 r_mcbond_other 1.503 r_scbond_it 1.351 r_scbond_other 1.351 r_angle_refined_deg 0.716 r_angle_other_deg 0.249 r_symmetry_nbd_other 0.174 r_nbd_refined 0.17 r_nbtor_refined 0.161 r_nbd_other 0.134 r_symmetry_xyhbond_nbd_refined 0.119 r_symmetry_nbd_refined 0.111 r_xyhbond_nbd_refined 0.098 r_symmetry_nbtor_other 0.079 r_ncsr_local_group_3 0.074 r_ncsr_local_group_2 0.067 r_ncsr_local_group_1 0.049 r_chiral_restr 0.034 r_bond_refined_d 0.002 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2618 Nucleic Acid Atoms Solvent Atoms 27 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing