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Crystal structure of the C-terminal half of UvrC bound to its catalytic divalent cation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2NRR pdb entry 2NRR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 295 14% PEG 8000, 0.1 M HEPES (pH 7.5), 0.01 M manganese chloride, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.9 57.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.395 α = 90 b = 83.853 β = 99.49 c = 100.642 γ = 90
Symmetry Space Group P 1 21 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 4 2005-04-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C NSLS X26C
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 40 98.6 0.065 12 76400 38877 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) 2 2.07 97.9 0.424 7612
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 (All) 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 2NRR 2 40 76400 38686 1938 98.57 0.186 0.186 0.183 0.2068 0.234 0.2477 RANDOM 34.633
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] -1.11 -0.09 0.77 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.937 r_dihedral_angle_3_deg 17.143 r_dihedral_angle_4_deg 15.793 r_sphericity_free 9.211 r_dihedral_angle_1_deg 6.147 r_scangle_it 3.995 r_scbond_it 2.709 r_sphericity_bonded 2.474 r_mcangle_it 2.135 r_angle_refined_deg 1.538
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.937 r_dihedral_angle_3_deg 17.143 r_dihedral_angle_4_deg 15.793 r_sphericity_free 9.211 r_dihedral_angle_1_deg 6.147 r_scangle_it 3.995 r_scbond_it 2.709 r_sphericity_bonded 2.474 r_mcangle_it 2.135 r_angle_refined_deg 1.538 r_mcbond_it 1.49 r_rigid_bond_restr 1.437 r_angle_other_deg 0.828 r_mcbond_other 0.458 r_symmetry_vdw_other 0.298 r_symmetry_hbond_refined 0.276 r_symmetry_vdw_refined 0.238 r_nbd_refined 0.218 r_nbd_other 0.192 r_xyhbond_nbd_refined 0.188 r_nbtor_refined 0.18 r_chiral_restr 0.099 r_nbtor_other 0.087 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3489 Nucleic Acid Atoms Solvent Atoms 235 Heterogen Atoms 3
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction MOLREP phasing