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Crystal Structure of Conserved Hypothetical Protein from Stenotrophomonas maltophilia (strain K279a)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 292 8.9 mM protein, 0.5 M sodium chloride, 0.01 M Tris-HCl, pH 8.3 against PEG's II (F3) [0.1 M HEPES, pH 7.5, 20% w/v PEG4000, 10% w/v isopropanol], cryoprotectant: 0.1 M HEPES, pH 7.5, 20% w/v PEG4000, 10% w/v isopropanol
Crystal Properties Matthews coefficient Solvent content 1.66 25.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.399 α = 90 b = 144.741 β = 113.16 c = 79.038 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 PIXEL DECTRIS EIGER X 9M 2022-02-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.12706 APS 21-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.85 30 98 0.117 0.117 0.047 0.99 16.9 6.8 107367 -3 19.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.88 97.6 0.491 0.703 2.2 6.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.85 30 95195 4978 91.1 0.19359 0.19249 0.2438 0.21491 0.2672 RANDOM 24.458
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] 5.74 -0.82 -1.8 -3.94
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 5.794 r_long_range_B_other 5.739 r_dihedral_angle_3_deg 5.046 r_scangle_other 1.906 r_mcangle_it 1.801 r_mcangle_other 1.801 r_dihedral_angle_1_deg 1.572 r_scbond_it 1.218 r_scbond_other 1.218 r_angle_refined_deg 1.216
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 5.794 r_long_range_B_other 5.739 r_dihedral_angle_3_deg 5.046 r_scangle_other 1.906 r_mcangle_it 1.801 r_mcangle_other 1.801 r_dihedral_angle_1_deg 1.572 r_scbond_it 1.218 r_scbond_other 1.218 r_angle_refined_deg 1.216 r_dihedral_angle_2_deg 1.171 r_mcbond_it 1.029 r_mcbond_other 1.029 r_angle_other_deg 0.422 r_chiral_restr 0.067 r_gen_planes_refined 0.015 r_gen_planes_other 0.012 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_dihedral_angle_4_deg 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 8425 Nucleic Acid Atoms Solvent Atoms 586 Heterogen Atoms 105
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHENIX phasing