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mercuric reductase,GbsMerA, - FAD bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295 1.6 M sodium phosphate monobasic/0.4 M potassium phosphate dibasic, 0.1 M sodium phosphate dibasic/citric acid (pH 4.2)]
Crystal Properties Matthews coefficient Solvent content 2.63 53.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.19 α = 90 b = 105.82 β = 90 c = 126.82 γ = 90
Symmetry Space Group P 21 21 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 EIGER X 9M 2021-07-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.9794 PAL/PLS 5C (4A)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 29.38 99.9 0.11 1 15.5 13.2 33032
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 2.72 1.6 0.8
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.6 29.38 33028 2000 99.885 0.223 0.2192 0.2213 0.2818 0.2801 78.656
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] -0.021 0.034 -0.013
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.062 r_dihedral_angle_3_deg 17.732 r_dihedral_angle_4_deg 15.865 r_lrange_other 13.615 r_lrange_it 13.614 r_mcangle_it 9.228 r_mcangle_other 9.227 r_scangle_it 8.857 r_scangle_other 8.856 r_dihedral_angle_1_deg 7.057
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.062 r_dihedral_angle_3_deg 17.732 r_dihedral_angle_4_deg 15.865 r_lrange_other 13.615 r_lrange_it 13.614 r_mcangle_it 9.228 r_mcangle_other 9.227 r_scangle_it 8.857 r_scangle_other 8.856 r_dihedral_angle_1_deg 7.057 r_mcbond_it 6.355 r_mcbond_other 6.355 r_scbond_it 5.806 r_scbond_other 5.805 r_angle_refined_deg 1.502 r_angle_other_deg 1.221 r_symmetry_xyhbond_nbd_refined 0.24 r_nbd_other 0.21 r_nbd_refined 0.197 r_symmetry_nbd_other 0.189 r_symmetry_nbd_refined 0.185 r_nbtor_refined 0.163 r_xyhbond_nbd_refined 0.152 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.061 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6798 Nucleic Acid Atoms Solvent Atoms 33 Heterogen Atoms 106
Software Software Software Name Purpose REFMAC refinement XDS data reduction pointless data scaling MOLREP phasing