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Serratia marcescens short-chain dehydrogenase/reductase F98Y/F202Y mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ZGW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 50mM HEPES buffer (pH 7.0), 40% (v/v) tacsimate (pH 7.0), 2mM spermine, 2mM hexamine cobalt (III) chloride
Crystal Properties Matthews coefficient Solvent content 1.71 27.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.925 α = 90 b = 83.925 β = 90 c = 115.038 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 150 CCD RAYONIX MX300HE 2016-10-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL15A1 1.0 NSRRC BL15A1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.47 67.55 100 0.049 0.009 85.1 28.1 70468
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 1.47 1.52 0.999
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4ZGW 1.47 67.55 66030 3391 98.61 0.17638 0.17483 0.20663 0.2222 RANDOM 17.083
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] -0.1 -0.1 0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.913 r_dihedral_angle_4_deg 15.443 r_dihedral_angle_3_deg 12.558 r_dihedral_angle_1_deg 6.733 r_long_range_B_refined 5.619 r_long_range_B_other 5.441 r_scangle_other 4.836 r_scbond_it 3.334 r_scbond_other 3.333 r_mcangle_it 2.627
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.913 r_dihedral_angle_4_deg 15.443 r_dihedral_angle_3_deg 12.558 r_dihedral_angle_1_deg 6.733 r_long_range_B_refined 5.619 r_long_range_B_other 5.441 r_scangle_other 4.836 r_scbond_it 3.334 r_scbond_other 3.333 r_mcangle_it 2.627 r_mcangle_other 2.626 r_angle_refined_deg 2.54 r_mcbond_it 1.859 r_mcbond_other 1.859 r_angle_other_deg 1.235 r_chiral_restr 0.155 r_bond_refined_d 0.028 r_gen_planes_refined 0.012 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 3321 Nucleic Acid Atoms Solvent Atoms 347 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling AMoRE phasing