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CRYSTAL STRUCTURE OF A MUTANT MYLU-B-67 FOR 2.4 ANGSTROM, 52M 53Q 54Q 55P 56W DELETED
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6ILC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 300 0.1 M Calcium acetate hydrate 0.1 M Sodium cacodylate 12 % w/v PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.52 51.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.756 α = 90 b = 81.034 β = 90 c = 143.796 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 2022-10-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NFPSS BEAMLINE BL19U1 0.9870 NFPSS BL19U1
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 1.98 50 99.4 0.122 19.636 12.3 17684
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.98 2.01 1.271
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.4 43.89 16764 840 99.55 0.21125 0.20819 0.2114 0.27684 0.2792 RANDOM 44.743
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] -1.59 3.75 -2.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.429 r_dihedral_angle_4_deg 22.579 r_dihedral_angle_3_deg 18.483 r_long_range_B_other 8.133 r_long_range_B_refined 8.131 r_dihedral_angle_1_deg 7.784 r_scangle_other 6.078 r_mcangle_it 5.232 r_mcangle_other 5.231 r_scbond_it 3.985
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.429 r_dihedral_angle_4_deg 22.579 r_dihedral_angle_3_deg 18.483 r_long_range_B_other 8.133 r_long_range_B_refined 8.131 r_dihedral_angle_1_deg 7.784 r_scangle_other 6.078 r_mcangle_it 5.232 r_mcangle_other 5.231 r_scbond_it 3.985 r_scbond_other 3.984 r_mcbond_it 3.608 r_mcbond_other 3.607 r_angle_refined_deg 1.565 r_angle_other_deg 1.261 r_chiral_restr 0.074 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 3090 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHASER phasing