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Clathrin heavy chain N-terminal domain complexed with peptide from Protein mu-NS of Reovirus type 1
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 297 30% PEG 550 MME; PEG 20K, 0.12M Monosaccharides (D-Glucose; D-Mannose; D-Galactose; L-Fucose; D-Xylose; N-Acetyl-D-Glucosamine) and 0.1M Sodium HEPES; MOPS (acid) pH-7.5
Crystal Properties Matthews coefficient Solvent content 3.69 66.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 137.533 α = 90 b = 128.932 β = 115.5 c = 78.1 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 1.97 89.43 93.3 0.991 9.1 3.5 61571
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 1.97 2.11 0.561
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 1c9i 1.97 89.43 58624 2950 71.32 0.1854 0.1839 0.1905 0.2154 0.2189 RANDOM 39.398
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] 0.32 -0.06 -0.28 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.487 r_dihedral_angle_4_deg 15.747 r_dihedral_angle_3_deg 15.354 r_dihedral_angle_1_deg 7.961 r_angle_refined_deg 1.54 r_angle_other_deg 1.288 r_chiral_restr 0.065 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.487 r_dihedral_angle_4_deg 15.747 r_dihedral_angle_3_deg 15.354 r_dihedral_angle_1_deg 7.961 r_angle_refined_deg 1.54 r_angle_other_deg 1.288 r_chiral_restr 0.065 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5754 Nucleic Acid Atoms Solvent Atoms 470 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XSCALE data scaling PHASER phasing