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Crystal structure of a single chain monellin mutant (Y65R) pH 2.0
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 2 293 33% PEG4000, 0.2 M (NH4)2SO4
Crystal Properties Matthews coefficient Solvent content 1.98 37.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.912 α = 90 b = 31.501 β = 106.24 c = 45.743 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 2015-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54187
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.05 30 99.3 0.131 9.55 4.1 11277
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 2.05 2.18 98 0.674 0.847
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 2.05 61.88 10651 626 99.42 0.19637 0.19299 0.1981 0.25241 0.2548 RANDOM 30.078
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] 0.69 -0.15 1.12 -1.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.268 r_dihedral_angle_4_deg 19.289 r_dihedral_angle_3_deg 16.35 r_dihedral_angle_1_deg 7.567 r_long_range_B_refined 5.167 r_long_range_B_other 5.141 r_scangle_other 2.431 r_mcangle_it 2.316 r_mcangle_other 2.315 r_angle_refined_deg 1.958
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.268 r_dihedral_angle_4_deg 19.289 r_dihedral_angle_3_deg 16.35 r_dihedral_angle_1_deg 7.567 r_long_range_B_refined 5.167 r_long_range_B_other 5.141 r_scangle_other 2.431 r_mcangle_it 2.316 r_mcangle_other 2.315 r_angle_refined_deg 1.958 r_scbond_it 1.521 r_scbond_other 1.489 r_mcbond_it 1.384 r_mcbond_other 1.384 r_angle_other_deg 1.042 r_chiral_restr 0.121 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1521 Nucleic Acid Atoms Solvent Atoms 134 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement XDS data reduction PHASER phasing