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Dps from Deinococcus radiodurans
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2C2F PDB ENTRY 2C2F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 200MM LITHIUM SULFATE 100MM TRIS-HCL PH8.5 15% PEG4000, pH 8.50
Crystal Properties Matthews coefficient Solvent content 2.6 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.369 α = 90 b = 90.369 β = 90 c = 90.369 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 CCD MULTI-LAYER MIRROR 2005-09-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.1 21.31 99.6 0.06 13.7 5.4 99021 2.5
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 1.1 1.13 98.1 0.48 2.5 3.9
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2C2F 1.1 21.3 94077 4931 99.6 0.127 0.126 0.129 0.149 RANDOM 8.05
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 42.715 r_dihedral_angle_3_deg 13.047 r_dihedral_angle_4_deg 12.302 r_dihedral_angle_1_deg 4.821 r_scangle_it 4.45 r_scbond_it 3.358 r_mcangle_it 2.243 r_mcbond_it 2.035 r_angle_other_deg 1.983 r_angle_refined_deg 1.702
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.715 r_dihedral_angle_3_deg 13.047 r_dihedral_angle_4_deg 12.302 r_dihedral_angle_1_deg 4.821 r_scangle_it 4.45 r_scbond_it 3.358 r_mcangle_it 2.243 r_mcbond_it 2.035 r_angle_other_deg 1.983 r_angle_refined_deg 1.702 r_symmetry_vdw_other 0.356 r_nbd_refined 0.268 r_xyhbond_nbd_refined 0.234 r_nbd_other 0.228 r_symmetry_hbond_refined 0.207 r_nbtor_refined 0.191 r_symmetry_vdw_refined 0.173 r_chiral_restr 0.124 r_nbtor_other 0.077 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_gen_planes_other 0.007 r_bond_other_d 0.002 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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 1416 Nucleic Acid Atoms Solvent Atoms 344 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing