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Crystal structure of UvrA2 from Deinococcus radiodurans
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VF7 PDB ENTRY 2VF7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.2 17% PEG 3000, 0.1M CITRATE PH 5.2, 125MM AMMONIUM SULPHATE AND 1MM TCEP
Crystal Properties Matthews coefficient Solvent content 3.63 65.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 149.632 α = 90 b = 171.04 β = 90 c = 204.205 γ = 90
Symmetry Space Group C 2 2 21
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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 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 50 96.4 0.1 11.2 4.6 50546
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 3 3.2 98.2 0.55 2.1 4.6
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 2VF7 3 102.06 47950 2543 96 0.221 0.217 0.2352 0.294 0.2989 RANDOM 67.55
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] -4.19 7.13 -2.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.049 r_dihedral_angle_3_deg 24.389 r_dihedral_angle_4_deg 19.983 r_dihedral_angle_1_deg 8.5 r_scangle_it 2.51 r_angle_refined_deg 1.964 r_scbond_it 1.482 r_mcangle_it 1.269 r_mcbond_it 0.72 r_nbtor_refined 0.324
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.049 r_dihedral_angle_3_deg 24.389 r_dihedral_angle_4_deg 19.983 r_dihedral_angle_1_deg 8.5 r_scangle_it 2.51 r_angle_refined_deg 1.964 r_scbond_it 1.482 r_mcangle_it 1.269 r_mcbond_it 0.72 r_nbtor_refined 0.324 r_nbd_refined 0.277 r_symmetry_vdw_refined 0.232 r_symmetry_hbond_refined 0.228 r_xyhbond_nbd_refined 0.2 r_chiral_restr 0.123 r_bond_refined_d 0.018 r_gen_planes_refined 0.006 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 12569 Nucleic Acid Atoms Solvent Atoms 102 Heterogen Atoms 157
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing