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Crystal structure of LolA superfamily protein NE2245 from Nitrosomonas europaea
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 289 0.1M HEPES pH 7.5, 25% PEG 1000, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 1.75 29.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.019 α = 90 b = 59.116 β = 90.72 c = 89.676 γ = 90
Symmetry Space Group P 1 21 1
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 2007-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97940 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 1.2 50 98.5 0.093 47.67 8.9 114457 112699 -3 10.6
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 1.24 96.1 0.342 6.84 7.9 10959
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 SAD THROUGHOUT 1.2 49.33 112526 112526 5639 98.26 0.16004 0.16004 0.15834 0.1625 0.19227 0.1968 RANDOM 15.385
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] 0.04 -0.08 0.08 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.402 r_dihedral_angle_4_deg 14.989 r_dihedral_angle_3_deg 13.747 r_dihedral_angle_1_deg 6.494 r_scangle_it 5.472 r_scbond_it 4.076 r_mcangle_it 2.786 r_mcbond_it 2.099 r_angle_refined_deg 1.702 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.402 r_dihedral_angle_4_deg 14.989 r_dihedral_angle_3_deg 13.747 r_dihedral_angle_1_deg 6.494 r_scangle_it 5.472 r_scbond_it 4.076 r_mcangle_it 2.786 r_mcbond_it 2.099 r_angle_refined_deg 1.702 r_nbtor_refined 0.313 r_symmetry_vdw_refined 0.288 r_nbd_refined 0.225 r_symmetry_hbond_refined 0.215 r_xyhbond_nbd_refined 0.168 r_chiral_restr 0.112 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 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 4013 Nucleic Acid Atoms Solvent Atoms 449 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing