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Crystal structure of an OspA mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CKA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 292 0.1 M Tris-HCl, 30% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.42 49.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.279 α = 90 b = 107.988 β = 90 c = 36.29 γ = 90
Symmetry Space Group P 21 21 2
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 270 2016-06-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.00000 Photon Factory AR-NW12A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 20 99.8 29.9 10.3 20560
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.14 99.7 4.3 9.9
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 3CKA 2.1 20 19458 1039 99.03 0.1994 0.19615 0.25999 0.2519 RANDOM 35.942
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] -0.79 0.99 -0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.329 r_dihedral_angle_3_deg 15.621 r_dihedral_angle_4_deg 11.02 r_long_range_B_refined 6.617 r_long_range_B_other 6.527 r_dihedral_angle_1_deg 6.17 r_scangle_other 4.549 r_mcangle_it 3.329 r_mcangle_other 3.329 r_scbond_it 2.824
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.329 r_dihedral_angle_3_deg 15.621 r_dihedral_angle_4_deg 11.02 r_long_range_B_refined 6.617 r_long_range_B_other 6.527 r_dihedral_angle_1_deg 6.17 r_scangle_other 4.549 r_mcangle_it 3.329 r_mcangle_other 3.329 r_scbond_it 2.824 r_scbond_other 2.823 r_mcbond_it 2.225 r_mcbond_other 2.223 r_angle_refined_deg 1.539 r_angle_other_deg 0.946 r_chiral_restr 0.091 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 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 2387 Nucleic Acid Atoms Solvent Atoms 272 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing