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crystal structure of Os1348 from Pseudomonas sp. Os17
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Other ideal helix
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 30% (w/v) polyethylene glycol monomethylester 2000, 0.2 M MgCl2
Crystal Properties Matthews coefficient Solvent content 1.82 32.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.607 α = 90 b = 33.61 β = 92.756 c = 66.217 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 95 CCD ADSC QUANTUM 315 2017-04-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0 Photon Factory BL-5A
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 1.9 100 100 0.172 14.3 6.5 20568
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 1.9 1.97 100 0.7 3 5.9
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE ideal helix 1.903 44.961 20535 993 99.419 0.172 0.1696 0.1807 0.2243 0.2321 26.981
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] 1.773 0.543 -1.118 -0.704
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.071 r_dihedral_angle_4_deg 20.848 r_dihedral_angle_3_deg 15.436 r_dihedral_angle_1_deg 6.476 r_lrange_it 6.168 r_lrange_other 6.053 r_scangle_it 4.338 r_scangle_other 4.337 r_mcangle_other 3.294 r_mcangle_it 3.293
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.071 r_dihedral_angle_4_deg 20.848 r_dihedral_angle_3_deg 15.436 r_dihedral_angle_1_deg 6.476 r_lrange_it 6.168 r_lrange_other 6.053 r_scangle_it 4.338 r_scangle_other 4.337 r_mcangle_other 3.294 r_mcangle_it 3.293 r_scbond_it 2.738 r_scbond_other 2.737 r_mcbond_it 2.204 r_mcbond_other 2.198 r_angle_refined_deg 1.549 r_angle_other_deg 1.475 r_nbd_refined 0.23 r_symmetry_xyhbond_nbd_refined 0.193 r_symmetry_nbd_other 0.166 r_xyhbond_nbd_refined 0.162 r_nbtor_refined 0.154 r_nbd_other 0.138 r_symmetry_nbd_refined 0.113 r_symmetry_nbtor_other 0.084 r_chiral_restr 0.072 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2075 Nucleic Acid Atoms Solvent Atoms 217 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMPLE phasing