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Single-stranded DNA-binding protein from bacteriophage Enc34, C-terminal truncation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5ODJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.04 M potassium dihydrogen phosphate, 16% PEG 8000, 20% glycerol
Crystal Properties Matthews coefficient Solvent content 2.4 48.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.77 α = 90 b = 103.62 β = 111.09 c = 59.29 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 MARMOSAIC 225 mm CCD 2014-05-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-3 0.97181 MAX II I911-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 1.34 29.61 99.3 0.047 0.032 0.997 12.6 3.1 126056
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 1.34 1.42 99.1 0.369 0.266 0.814 2.8 2.7
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 5odj 1.34 29.61 119860 6157 99.22 0.15215 0.15044 0.1494 0.18633 0.1856 RANDOM 21.735
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] 0.11 0.85 -0.32 -0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.787 r_sphericity_free 25.279 r_dihedral_angle_4_deg 14.327 r_rigid_bond_restr 12.727 r_dihedral_angle_3_deg 11.731 r_sphericity_bonded 10.576 r_dihedral_angle_1_deg 6.258 r_long_range_B_refined 4.039 r_long_range_B_other 3.971 r_angle_other_deg 3.571
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.787 r_sphericity_free 25.279 r_dihedral_angle_4_deg 14.327 r_rigid_bond_restr 12.727 r_dihedral_angle_3_deg 11.731 r_sphericity_bonded 10.576 r_dihedral_angle_1_deg 6.258 r_long_range_B_refined 4.039 r_long_range_B_other 3.971 r_angle_other_deg 3.571 r_scangle_other 3.387 r_scbond_other 2.831 r_scbond_it 2.83 r_mcangle_other 2.431 r_mcangle_it 2.428 r_mcbond_it 1.962 r_mcbond_other 1.951 r_angle_refined_deg 1.627 r_chiral_restr 0.103 r_bond_refined_d 0.011 r_gen_planes_other 0.01 r_gen_planes_refined 0.008 r_bond_other_d 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4132 Nucleic Acid Atoms Solvent Atoms 530 Heterogen Atoms 17
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling MOLREP phasing