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Crystal structure of OrE-ST-F
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PP9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.1 M MES pH 6.5
0.2 M ammonium sulfate
20% PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.6 52.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.714 α = 89.945 b = 77.826 β = 90.043 c = 108.99 γ = 89.991
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 RAYONIX MX300HE 2015-12-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL15A1 1 NSRRC BL15A1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 2.415 20 97.9 0.081 0.099 15.2 2.8 59578
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.42 2.51 0.441 0.545 3.8
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 3PP9 2.415 19.899 59578 2912 96.958 0.213 0.2114 0.2132 0.2454 0.2491 34.404
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] 1.657 0.287 -0.235 -0.04 0.424 -1.615
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.782 r_dihedral_angle_4_deg 18.011 r_dihedral_angle_3_deg 15.898 r_dihedral_angle_1_deg 6.176 r_lrange_it 5.357 r_lrange_other 5.31 r_scangle_it 3.309 r_scangle_other 3.309 r_mcangle_it 2.886 r_mcangle_other 2.885
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.782 r_dihedral_angle_4_deg 18.011 r_dihedral_angle_3_deg 15.898 r_dihedral_angle_1_deg 6.176 r_lrange_it 5.357 r_lrange_other 5.31 r_scangle_it 3.309 r_scangle_other 3.309 r_mcangle_it 2.886 r_mcangle_other 2.885 r_scbond_it 1.938 r_scbond_other 1.937 r_mcbond_it 1.711 r_mcbond_other 1.71 r_angle_refined_deg 1.414 r_chiral_restr_other 1.232 r_angle_other_deg 1.225 r_nbd_other 0.221 r_nbd_refined 0.173 r_symmetry_nbd_other 0.173 r_xyhbond_nbd_refined 0.162 r_nbtor_refined 0.157 r_symmetry_xyhbond_nbd_refined 0.153 r_symmetry_nbd_refined 0.133 r_symmetry_xyhbond_nbd_other 0.087 r_symmetry_nbtor_other 0.073 r_ncsr_local_group_18 0.07 r_ncsr_local_group_2 0.069 r_chiral_restr 0.067 r_ncsr_local_group_14 0.067 r_ncsr_local_group_17 0.064 r_ncsr_local_group_15 0.063 r_ncsr_local_group_24 0.057 r_ncsr_local_group_1 0.056 r_ncsr_local_group_6 0.056 r_ncsr_local_group_28 0.056 r_ncsr_local_group_9 0.054 r_ncsr_local_group_21 0.054 r_ncsr_local_group_5 0.053 r_ncsr_local_group_23 0.053 r_ncsr_local_group_27 0.053 r_ncsr_local_group_12 0.052 r_ncsr_local_group_16 0.052 r_ncsr_local_group_20 0.052 r_ncsr_local_group_8 0.051 r_ncsr_local_group_13 0.049 r_ncsr_local_group_10 0.048 r_ncsr_local_group_26 0.048 r_ncsr_local_group_3 0.037 r_ncsr_local_group_4 0.037 r_ncsr_local_group_11 0.033 r_ncsr_local_group_19 0.033 r_ncsr_local_group_7 0.032 r_ncsr_local_group_25 0.031 r_ncsr_local_group_22 0.028 r_gen_planes_refined 0.006 r_bond_refined_d 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10302 Nucleic Acid Atoms Solvent Atoms 537 Heterogen Atoms 280
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing