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Arbitrium receptor from a Bacillus subtilis Katmira33 phage
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6S7I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 294 2-6 0.2 M Potassium acetate 0.1 M MES 6.0 15 % v/v Pentaerythritol ethoxylate (15/4 EO/OH)
3 % v/v Jeffamine T-403
Crystal Properties Matthews coefficient Solvent content 2.8 55.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.703 α = 90 b = 209.765 β = 90 c = 140.254 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 PIXEL DECTRIS PILATUS3 6M 2019-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.97918 ALBA XALOC
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 2.6 104.88 99.8 9.5 4.7 32018
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 2.6 2.74
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 6S7I 2.6 104.88 31992 1618 99.61 0.2155 0.2138 0.2037 0.2474 0.2423 RANDOM 66.5337
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] 0.56 4.2 -4.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.588 r_dihedral_angle_4_deg 25.938 r_dihedral_angle_3_deg 23.78 r_mcangle_it 5.463 r_dihedral_angle_1_deg 5.414 r_angle_other_deg 3.819 r_mcbond_it 3.41 r_mcbond_other 3.392 r_angle_refined_deg 1.763 r_chiral_restr 0.151
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.588 r_dihedral_angle_4_deg 25.938 r_dihedral_angle_3_deg 23.78 r_mcangle_it 5.463 r_dihedral_angle_1_deg 5.414 r_angle_other_deg 3.819 r_mcbond_it 3.41 r_mcbond_other 3.392 r_angle_refined_deg 1.763 r_chiral_restr 0.151 r_bond_refined_d 0.014 r_gen_planes_other 0.007 r_gen_planes_refined 0.006 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6434 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction SCALA data scaling MOLREP phasing