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Serratia marcescens short-chain dehydrogenase/reductase F98L/F202L 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 50 mM HEPES buffer (pH 7.0), 40% (v/v) tacsimate (pH 7.0), 2 mM spermine, and 2 mM hexamine cobalt (III) chloride
Crystal Properties Matthews coefficient Solvent content 1.72 28.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.012 α = 90 b = 84.012 β = 90 c = 115.822 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 NSRRC BL15A1
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 1.9 50 92.3 10.5 26.7 33651
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 1.9 50.01 29178 1505 91.33 0.17358 0.17157 0.21174 0.2287 RANDOM 22.543
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] -0.28 -0.28 0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.485 r_dihedral_angle_4_deg 17.539 r_dihedral_angle_3_deg 14.605 r_long_range_B_refined 6.943 r_long_range_B_other 6.926 r_dihedral_angle_1_deg 6.685 r_scangle_other 5.66 r_scbond_it 3.829 r_scbond_other 3.828 r_mcangle_it 2.872
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.485 r_dihedral_angle_4_deg 17.539 r_dihedral_angle_3_deg 14.605 r_long_range_B_refined 6.943 r_long_range_B_other 6.926 r_dihedral_angle_1_deg 6.685 r_scangle_other 5.66 r_scbond_it 3.829 r_scbond_other 3.828 r_mcangle_it 2.872 r_mcangle_other 2.871 r_mcbond_other 2.099 r_mcbond_it 2.098 r_angle_refined_deg 1.99 r_angle_other_deg 1.103 r_chiral_restr 0.116 r_bond_refined_d 0.02 r_gen_planes_refined 0.009 r_bond_other_d 0.006 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 3349 Nucleic Acid Atoms Solvent Atoms 249 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling AMoRE phasing