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Crystal structure of a single chain monellin mutant (Y65R) pH 4.6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2O9U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 293 27% PEG4000, 0.1 M CH3COONa pH 4.6, 0.2 M (NH4)2SO4
Crystal Properties Matthews coefficient Solvent content 1.93 36.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 129.15 α = 90 b = 30.834 β = 105.79 c = 45.368 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 RIGAKU SATURN 944 MIRRORS 2015-03-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.54187
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 50 99.6 8.1 4.3 5469
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.76 99.9 0.768 0.716 4.3
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 2O9U 2.6 50 5154 315 99.65 0.22524 0.22263 0.2179 0.26992 0.2758 RANDOM 30.902
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] 0.26 -1.58 -1.56 1.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.689 r_dihedral_angle_4_deg 22.727 r_dihedral_angle_3_deg 17.867 r_dihedral_angle_1_deg 6.787 r_long_range_B_refined 3.319 r_angle_refined_deg 2.067 r_mcangle_it 0.87 r_mcbond_it 0.471 r_scbond_it 0.465 r_chiral_restr 0.115
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.689 r_dihedral_angle_4_deg 22.727 r_dihedral_angle_3_deg 17.867 r_dihedral_angle_1_deg 6.787 r_long_range_B_refined 3.319 r_angle_refined_deg 2.067 r_mcangle_it 0.87 r_mcbond_it 0.471 r_scbond_it 0.465 r_chiral_restr 0.115 r_bond_refined_d 0.019 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other 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 1500 Nucleic Acid Atoms Solvent Atoms 35 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement XDS data processing