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Crystal Structure of DNR from Pseudomonas aeruginosa.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Z69
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.2 294 20% PEG 3350, 0.2M NH4 Tartrate, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.35 47.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 245.282 α = 90 b = 121.466 β = 97.53 c = 82.554 γ = 90
Symmetry Space Group C 1 2 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 mirrors 2008-06-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.972 ESRF ID23-1
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 3.6 100 96.9 0.17 6.7 2.7 27898 27033 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) 3.6 3.79 97.7 0.486 1.9 2.7 3955
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 (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 2Z69 3.6 100 27019 25660 1359 96.67 0.32819 0.32575 0.3202 0.37428 0.3662 RANDOM 52.494
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] 3.24 1.33 -3.19 0.3
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 30.872 r_scbond_it 22.937 r_mcangle_it 16.202 r_dihedral_angle_2_deg 15.095 r_mcbond_it 10.624 r_dihedral_angle_3_deg 7.546 r_dihedral_angle_4_deg 6.474 r_dihedral_angle_1_deg 1.749 r_symmetry_vdw_refined 0.455 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 30.872 r_scbond_it 22.937 r_mcangle_it 16.202 r_dihedral_angle_2_deg 15.095 r_mcbond_it 10.624 r_dihedral_angle_3_deg 7.546 r_dihedral_angle_4_deg 6.474 r_dihedral_angle_1_deg 1.749 r_symmetry_vdw_refined 0.455 r_nbtor_refined 0.316 r_nbd_refined 0.291 r_angle_refined_deg 0.254 r_xyhbond_nbd_refined 0.243 r_symmetry_hbond_refined 0.144 r_chiral_restr 0.018 r_bond_refined_d 0.001 r_bond_other_d r_angle_other_deg r_gen_planes_refined 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 18250 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DNA data collection SCALA data scaling PHASER phasing