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Atomic-resolution crystal structure of Borrelia burgdorferi OspA via surface entropy reduction
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OSP PDB ENTRY 1OSP, O chain
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.7 293 30% PEG400, 0.1M imidazole, pH 7.7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.2 44.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 33.224 α = 90 b = 54.628 β = 100.36 c = 66.459 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 2005-08-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.15 20 99.8 0.071 0.071 17.76 2.9 82636 82636 1 1
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) 1.15 1.19 99.8 0.328 3.04 2.3
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 (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 1OSP, O chain 1.15 20 78535 78535 4113 99.63 0.15498 0.15364 0.1549 0.17996 0.1825 RANDOM 11.183
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] 0.1 -0.04 1.01 -1.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.958 r_dihedral_angle_3_deg 11.557 r_dihedral_angle_4_deg 6.095 r_sphericity_free 6.03 r_dihedral_angle_1_deg 5.901 r_sphericity_bonded 3.372 r_scangle_it 3.201 r_mcangle_it 2.623 r_scbond_it 2.376 r_mcbond_it 2.057
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.958 r_dihedral_angle_3_deg 11.557 r_dihedral_angle_4_deg 6.095 r_sphericity_free 6.03 r_dihedral_angle_1_deg 5.901 r_sphericity_bonded 3.372 r_scangle_it 3.201 r_mcangle_it 2.623 r_scbond_it 2.376 r_mcbond_it 2.057 r_angle_refined_deg 1.784 r_rigid_bond_restr 1.378 r_angle_other_deg 0.914 r_mcbond_other 0.907 r_nbd_refined 0.208 r_nbd_other 0.192 r_nbtor_refined 0.161 r_xyhbond_nbd_refined 0.127 r_symmetry_vdw_other 0.12 r_chiral_restr 0.118 r_symmetry_vdw_refined 0.108 r_symmetry_hbond_refined 0.097 r_nbtor_other 0.086 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.001 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1869 Nucleic Acid Atoms Solvent Atoms 403 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing