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Nitrosomonas europea HAO soaked in NH2OH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4N4N PDB ENTRY 4N4N
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH UNDER OIL 7.5 293 42% v/v PEG400, 50 mM potassium nitrate, 100 mM MES/NaOH, pH 7.5, MICROBATCH UNDER OIL, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.77 55.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 140.09 α = 90 b = 141.96 β = 90 c = 106.48 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 PIXEL PSI PILATUS 6M 2012-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9778 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.472 50 99.3 0.124 11 4.5 68039 68039
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.472 2.7 99.3 0.541 3.1 4.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 4N4N 2.472 49.95 68039 68039 7133 98.2 0.22859 0.22859 0.22395 0.2211 0.27289 0.269 RANDOM 32.941
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] -2.53 2.49 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.875 r_dihedral_angle_4_deg 15.526 r_dihedral_angle_3_deg 14.427 r_dihedral_angle_1_deg 4.461 r_angle_refined_deg 0.917 r_scangle_it 0.54 r_scbond_it 0.401 r_mcangle_it 0.369 r_mcbond_it 0.201 r_chiral_restr 0.061
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.875 r_dihedral_angle_4_deg 15.526 r_dihedral_angle_3_deg 14.427 r_dihedral_angle_1_deg 4.461 r_angle_refined_deg 0.917 r_scangle_it 0.54 r_scbond_it 0.401 r_mcangle_it 0.369 r_mcbond_it 0.201 r_chiral_restr 0.061 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13284 Nucleic Acid Atoms Solvent Atoms 993 Heterogen Atoms 1081
Software Software Software Name Purpose HEIDI data collection REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing