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The X-ray crystal structure of the Listeria innocua H31G Dps mutant.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QGH PDB ENTRY 1QGH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 PEG 1000 15-30 % W/V, ACETATE BUFFERS IN A PH RANGE BETWEEN 5.0-6.5
Crystal Properties Matthews coefficient Solvent content 2.56 51.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 136.33 α = 90 b = 136.33 β = 90 c = 242.489 γ = 90
Symmetry Space Group I 41 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 MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R ELETTRA 5.2R
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 2.2 40 97.7 0.1 15 6 57503
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.28 98.2
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 1QGH 2.19 119.52 54615 2883 97.3 0.212 0.211 0.2124 0.231 0.2101 RANDOM 27.39
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.455 r_dihedral_angle_4_deg 15.505 r_dihedral_angle_3_deg 15.406 r_dihedral_angle_1_deg 3.567 r_angle_refined_deg 1.909 r_scangle_it 1.599 r_mcangle_it 1.552 r_scbond_it 1.113 r_mcbond_it 1.005 r_nbtor_refined 0.271
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.455 r_dihedral_angle_4_deg 15.505 r_dihedral_angle_3_deg 15.406 r_dihedral_angle_1_deg 3.567 r_angle_refined_deg 1.909 r_scangle_it 1.599 r_mcangle_it 1.552 r_scbond_it 1.113 r_mcbond_it 1.005 r_nbtor_refined 0.271 r_symmetry_hbond_refined 0.174 r_nbd_refined 0.167 r_symmetry_vdw_refined 0.165 r_chiral_restr 0.161 r_xyhbond_nbd_refined 0.11 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7308 Nucleic Acid Atoms Solvent Atoms 546 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing