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Caulobacter crescentus pol III beta
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4TR8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.6 298 PEG
Crystal Properties Matthews coefficient Solvent content 2.67 53.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.855 α = 90 b = 59.572 β = 92.89 c = 86.49 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 AREA DETECTOR MARRESEARCH 2016-01-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.9 86.38 93 0.037 0.035 19.9 1.9 62720
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.97 84.4 0.342 0.324 0.817 2.1 1.8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4TR8 1.9 86.38 59627 3082 92.91 0.18884 0.1868 0.22624 0.2248 RANDOM 28.66
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] -0.29 0.35 -0.62 0.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.503 r_dihedral_angle_3_deg 13.579 r_dihedral_angle_4_deg 13.377 r_dihedral_angle_1_deg 6.73 r_long_range_B_refined 5.841 r_long_range_B_other 5.65 r_scangle_other 2.693 r_mcangle_it 2.244 r_mcangle_other 2.244 r_angle_refined_deg 1.763
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.503 r_dihedral_angle_3_deg 13.579 r_dihedral_angle_4_deg 13.377 r_dihedral_angle_1_deg 6.73 r_long_range_B_refined 5.841 r_long_range_B_other 5.65 r_scangle_other 2.693 r_mcangle_it 2.244 r_mcangle_other 2.244 r_angle_refined_deg 1.763 r_scbond_it 1.687 r_scbond_other 1.686 r_mcbond_it 1.362 r_mcbond_other 1.362 r_angle_other_deg 1.001 r_chiral_restr 0.102 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5573 Nucleic Acid Atoms Solvent Atoms 536 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PHENIX phasing