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The crystal structure of DUF198 from Nitrosomonas europaea ATCC 19718
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 289 1.6M NaH2PO4/0.4M K2HPO4, 0.1M Phosphate-Citrate, pH 4.2, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 3.69 66.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 118.705 α = 90 b = 118.705 β = 90 c = 113.21 γ = 120
Symmetry Space Group P 64 2 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 CCD ADSC QUANTUM 315 mirror 2007-07-30 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97951, 0.97965 APS 19-ID
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 3.05 38.87 99.1 0.151 17.4 9.9 9363 9363
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) 3.05 3.16 93.6 0.847 1.6 7.9 846
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 3.05 38.87 8890 8890 445 99.1 0.24007 0.24007 0.23905 0.2368 0.26052 0.262 RANDOM 74.918
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] -0.16 -0.08 -0.16 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.963 r_dihedral_angle_3_deg 18.022 r_dihedral_angle_4_deg 17.25 r_dihedral_angle_1_deg 5.342 r_scangle_it 1.011 r_angle_refined_deg 1.007 r_mcangle_it 0.751 r_scbond_it 0.559 r_mcbond_it 0.419 r_nbtor_refined 0.297
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.963 r_dihedral_angle_3_deg 18.022 r_dihedral_angle_4_deg 17.25 r_dihedral_angle_1_deg 5.342 r_scangle_it 1.011 r_angle_refined_deg 1.007 r_mcangle_it 0.751 r_scbond_it 0.559 r_mcbond_it 0.419 r_nbtor_refined 0.297 r_nbd_refined 0.19 r_symmetry_vdw_refined 0.151 r_xyhbond_nbd_refined 0.127 r_chiral_restr 0.076 r_symmetry_hbond_refined 0.037 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1978 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling MLPHARE phasing DM phasing HKL-3000 phasing