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Clathrin heavy chain N-terminal domain bound to Non structured protein 3 from Eastern Equine Encephalitis Virus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1C9I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 30% PEG 550 MME; PEG 20K and 0.1M NPS buffer system NaN03; Na2HPO4; (NH4)2SO4, pH-6.5
Crystal Properties Matthews coefficient Solvent content 3.71 66.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 136.9 α = 90 b = 129.119 β = 115.294 c = 77.881 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 PIXEL DECTRIS EIGER X 16M 2020-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 1.96 89.36 90.2 0.998 10 3.4 62270
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.96 2.11 0.629
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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1c9i 1.965 89.352 62270 3167 71.68 0.184 0.1815 0.1881 0.219 0.2241 0.1800 33.396
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] 0.422 -0.277 -0.269 0.075
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.033 r_dihedral_angle_4_deg 19.229 r_dihedral_angle_3_deg 15.281 r_dihedral_angle_1_deg 7.974 r_lrange_it 7.61 r_lrange_other 7.61 r_scangle_it 5.434 r_scangle_other 5.432 r_mcangle_it 4.441 r_mcangle_other 4.441
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.033 r_dihedral_angle_4_deg 19.229 r_dihedral_angle_3_deg 15.281 r_dihedral_angle_1_deg 7.974 r_lrange_it 7.61 r_lrange_other 7.61 r_scangle_it 5.434 r_scangle_other 5.432 r_mcangle_it 4.441 r_mcangle_other 4.441 r_scbond_it 3.521 r_scbond_other 3.517 r_mcbond_it 2.892 r_mcbond_other 2.892 r_angle_refined_deg 1.546 r_angle_other_deg 1.347 r_nbd_other 0.202 r_nbd_refined 0.194 r_symmetry_nbd_other 0.19 r_xyhbond_nbd_refined 0.163 r_nbtor_refined 0.158 r_symmetry_xyhbond_nbd_refined 0.146 r_symmetry_nbd_refined 0.113 r_symmetry_nbtor_other 0.086 r_chiral_restr 0.07 r_xyhbond_nbd_other 0.048 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5760 Nucleic Acid Atoms Solvent Atoms 503 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing