☰ Navigation Tabs
OXA-48_R250A with carbamylated Lys73 with bromide ions bound at neutral pH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4S2P
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 0.1M HEPES pH 7.5, 11.6% PEG8000, 8% 1-BuOH, mixed with the 10 mg/mL protein stock at 1:1 ratio.
Crystal Properties Matthews coefficient Solvent content 2.36 47.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.546 α = 90 b = 108.2 β = 90 c = 124.61 γ = 90
Symmetry Space Group P 21 21 21
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 16M 2021-05-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.918395 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 58.75 100 0.996 6.6 23.2 98044
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.88 0.737 1.1
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 4S2P 1.85 58.75 97955 5022 99.914 0.207 0.2052 0.2013 0.234 0.2321 20.915
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] 2.548 -0.76 -1.788
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.622 r_dihedral_angle_4_deg 15.909 r_dihedral_angle_3_deg 13.713 r_dihedral_angle_1_deg 6.027 r_lrange_it 5.395 r_lrange_other 5.313 r_scangle_it 3.453 r_scangle_other 3.452 r_mcangle_it 2.943 r_mcangle_other 2.943
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.622 r_dihedral_angle_4_deg 15.909 r_dihedral_angle_3_deg 13.713 r_dihedral_angle_1_deg 6.027 r_lrange_it 5.395 r_lrange_other 5.313 r_scangle_it 3.453 r_scangle_other 3.452 r_mcangle_it 2.943 r_mcangle_other 2.943 r_scbond_it 2.149 r_scbond_other 2.149 r_mcbond_it 1.824 r_mcbond_other 1.824 r_angle_refined_deg 1.435 r_angle_other_deg 1.366 r_symmetry_nbd_refined 0.267 r_nbd_other 0.22 r_nbd_refined 0.218 r_symmetry_nbd_other 0.171 r_nbtor_refined 0.168 r_xyhbond_nbd_refined 0.166 r_symmetry_xyhbond_nbd_refined 0.151 r_symmetry_nbtor_other 0.076 r_ncsr_local_group_5 0.074 r_chiral_restr 0.073 r_ncsr_local_group_3 0.071 r_ncsr_local_group_2 0.07 r_ncsr_local_group_4 0.07 r_ncsr_local_group_6 0.057 r_ncsr_local_group_1 0.051 r_bond_refined_d 0.009 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 7956 Nucleic Acid Atoms Solvent Atoms 901 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling MOLREP phasing