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1.15A resolution structure of the formylglycine generating enzyme FGE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y1E
Crystallization Crystal Properties Matthews coefficient Solvent content 2.12 42.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.295 α = 90 b = 109.765 β = 90 c = 43.511 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 2004-10-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.918 BESSY 14.2
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 1.15 41.2 88.2 0.061 23.9 93768
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 1.15 1.17 80.8 0.129 5.4 1.4 4230
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 1Y1E 1.15 41.2 89044 4525 87.76 0.13914 0.13759 0.1382 0.16991 0.1692 RANDOM 12.545
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] -0.01 0.04 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.719 r_dihedral_angle_4_deg 16.021 r_dihedral_angle_3_deg 13.511 r_sphericity_free 9.773 r_dihedral_angle_1_deg 6.782 r_sphericity_bonded 5.451 r_scangle_it 5.189 r_scbond_it 3.757 r_mcangle_it 3.178 r_mcbond_it 2.291
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.719 r_dihedral_angle_4_deg 16.021 r_dihedral_angle_3_deg 13.511 r_sphericity_free 9.773 r_dihedral_angle_1_deg 6.782 r_sphericity_bonded 5.451 r_scangle_it 5.189 r_scbond_it 3.757 r_mcangle_it 3.178 r_mcbond_it 2.291 r_angle_refined_deg 1.769 r_angle_other_deg 1.697 r_rigid_bond_restr 1.552 r_mcbond_other 1.03 r_symmetry_hbond_refined 0.251 r_symmetry_vdw_other 0.238 r_nbd_refined 0.213 r_nbd_other 0.212 r_symmetry_vdw_refined 0.205 r_nbtor_refined 0.186 r_xyhbond_nbd_refined 0.176 r_chiral_restr 0.104 r_nbtor_other 0.089 r_metal_ion_refined 0.069 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2192 Nucleic Acid Atoms Solvent Atoms 546 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling