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Crystal structure of the Nitrosomonas europaea Rh protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 14.5% PEG 2000 MME, 1 mM EDTA, 0.1 M MES buffer, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.42 64.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.438 α = 90 b = 100.438 β = 90 c = 143.875 γ = 120
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 MARMOSAIC 325 mm CCD 2007-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.9794 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.85 41.631 99.9 0.094 0.08 7 3.5 46212 46149 2 19.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.85 1.9 99.3 0.441 0.373 2.2 3.4 3404
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.85 41.631 46149 2339 99.86 0.161 0.16 0.161 0.183 0.1854 RANDOM 24.357
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] 0.17 0.09 0.17 -0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.034 r_dihedral_angle_3_deg 12.573 r_dihedral_angle_4_deg 10.268 r_dihedral_angle_1_deg 4.232 r_scangle_it 0.993 r_angle_refined_deg 0.982 r_scbond_it 0.646 r_mcangle_it 0.626 r_mcbond_it 0.35 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.034 r_dihedral_angle_3_deg 12.573 r_dihedral_angle_4_deg 10.268 r_dihedral_angle_1_deg 4.232 r_scangle_it 0.993 r_angle_refined_deg 0.982 r_scbond_it 0.646 r_mcangle_it 0.626 r_mcbond_it 0.35 r_nbtor_refined 0.298 r_nbd_refined 0.181 r_symmetry_vdw_refined 0.125 r_xyhbond_nbd_refined 0.074 r_symmetry_hbond_refined 0.07 r_chiral_restr 0.069 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2942 Nucleic Acid Atoms Solvent Atoms 346 Heterogen Atoms 44
Software Software Software Name Purpose MOSFLM data reduction DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection SCALA data scaling SHELXS phasing