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OleP mutant G92W in complex with 6DEB
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5MNS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 Sodium Formate 4.4M
Crystal Properties Matthews coefficient Solvent content 3.11 60.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 247.758 α = 90 b = 110.489 β = 129.66 c = 159.818 γ = 90
Symmetry Space Group C 1 2 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 PILATUS 6M 2019-05-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 1.000 ELETTRA 11.2C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.96 48.1 98.8 0.08 0.997 7.34 3.4 462764
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 1.96 2.08 97.8 0.323 3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5mns 2.08 48.03 188451 9963 99.8 0.17331 0.17037 0.1808 0.22779 0.2279 RANDOM 55.005
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] -0.27 -0.06 0.15 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.072 r_dihedral_angle_4_deg 18.202 r_dihedral_angle_3_deg 17.93 r_long_range_B_refined 10.862 r_long_range_B_other 10.862 r_scangle_other 8.171 r_mcangle_it 7.164 r_mcangle_other 7.164 r_dihedral_angle_1_deg 6.827 r_scbond_it 6.128
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.072 r_dihedral_angle_4_deg 18.202 r_dihedral_angle_3_deg 17.93 r_long_range_B_refined 10.862 r_long_range_B_other 10.862 r_scangle_other 8.171 r_mcangle_it 7.164 r_mcangle_other 7.164 r_dihedral_angle_1_deg 6.827 r_scbond_it 6.128 r_scbond_other 6.128 r_mcbond_it 5.496 r_mcbond_other 5.496 r_angle_refined_deg 1.857 r_angle_other_deg 1.36 r_chiral_restr 0.089 r_bond_refined_d 0.012 r_gen_planes_refined 0.01 r_gen_planes_other 0.006 r_bond_other_d 0.002 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 18686 Nucleic Acid Atoms Solvent Atoms 1339 Heterogen Atoms 899
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction SCALA data scaling MOLREP phasing