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Soluble domain of Rieske Iron Sulfur Protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2NUK pdb entry 2NUK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 276 1.5 M ammonium sulfate, 20% glycerol, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 276K
Crystal Properties Matthews coefficient Solvent content 2.25 45.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.648 α = 90 b = 70.648 β = 90 c = 54.717 γ = 90
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 4 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID APS 17-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 1.5 18 96.7 0.056 21 3.8 20919 20919 2 2
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 1.5 1.55 87.7 0.199 8 2 1864
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 pdb entry 2NUK 1.5 18 19380 1524 100 0.13635 0.13346 0.1365 0.1737 0.1763 RANDOM 13.143
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] 0.19 0.19 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.252 r_dihedral_angle_4_deg 11.908 r_dihedral_angle_3_deg 9.082 r_dihedral_angle_1_deg 5.931 r_scangle_it 2.95 r_scbond_it 2.056 r_angle_refined_deg 1.406 r_mcangle_it 1.294 r_mcbond_it 0.88 r_nbtor_refined 0.311
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.252 r_dihedral_angle_4_deg 11.908 r_dihedral_angle_3_deg 9.082 r_dihedral_angle_1_deg 5.931 r_scangle_it 2.95 r_scbond_it 2.056 r_angle_refined_deg 1.406 r_mcangle_it 1.294 r_mcbond_it 0.88 r_nbtor_refined 0.311 r_symmetry_vdw_refined 0.252 r_nbd_refined 0.185 r_symmetry_hbond_refined 0.123 r_chiral_restr 0.083 r_xyhbond_nbd_refined 0.079 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 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 1063 Nucleic Acid Atoms Solvent Atoms 181 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing