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Formylglycine generating enzyme C341S mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y1I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 PEG 4000, Calcium chloride, TRIS, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.25 45.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.873 α = 90 b = 109.524 β = 90 c = 43.374 γ = 90
Symmetry Space Group P 21 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 100 IMAGE PLATE MARRESEARCH 2005-06-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.48 30 89.9 0.054 23.3 3.7 45114 16.35
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.48 1.53 25.9 0.237 2.4 1.5 1277
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 1y1i 1.49 25.46 42888 2179 91.61 0.14067 0.13913 0.1511 0.1713 0.1835 RANDOM 17.944
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] 0.05 0.41 -0.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.342 r_dihedral_angle_4_deg 17.255 r_dihedral_angle_3_deg 11.874 r_dihedral_angle_1_deg 6.411 r_scangle_it 2.812 r_scbond_it 1.824 r_angle_refined_deg 1.328 r_mcangle_it 1.232 r_mcbond_it 0.895 r_angle_other_deg 0.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.342 r_dihedral_angle_4_deg 17.255 r_dihedral_angle_3_deg 11.874 r_dihedral_angle_1_deg 6.411 r_scangle_it 2.812 r_scbond_it 1.824 r_angle_refined_deg 1.328 r_mcangle_it 1.232 r_mcbond_it 0.895 r_angle_other_deg 0.8 r_nbd_refined 0.21 r_symmetry_vdw_refined 0.208 r_symmetry_hbond_refined 0.206 r_nbd_other 0.197 r_mcbond_other 0.196 r_nbtor_refined 0.188 r_xyhbond_nbd_refined 0.187 r_symmetry_vdw_other 0.18 r_chiral_restr 0.085 r_nbtor_other 0.082 r_metal_ion_refined 0.077 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2176 Nucleic Acid Atoms Solvent Atoms 569 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling