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DPP8 - SLRFLYEG, space group 20
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ORV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 Na citrate 0.46M
Crystal Properties Matthews coefficient Solvent content 4.18 70.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 162.83 α = 90 b = 246.371 β = 90 c = 261.191 γ = 90
Symmetry Space Group C 2 2 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 PILATUS 6M-F 2017-09-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.99992 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.4 44.62 100 0.17 22.8 8.44 203220
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 2.4 2.56 99.8 0.719 2.09 8.4
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 1ORV 2.4 44.62 193059 10161 99.91 0.21474 0.21358 0.2157 0.23663 0.2383 RANDOM 64.666
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] -1.29 2.84 -1.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.14 r_dihedral_angle_4_deg 15.479 r_dihedral_angle_3_deg 13.28 r_dihedral_angle_1_deg 6.092 r_long_range_B_refined 5.262 r_long_range_B_other 5.262 r_mcangle_it 3.282 r_mcangle_other 3.282 r_scangle_other 2.934 r_mcbond_it 1.884
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.14 r_dihedral_angle_4_deg 15.479 r_dihedral_angle_3_deg 13.28 r_dihedral_angle_1_deg 6.092 r_long_range_B_refined 5.262 r_long_range_B_other 5.262 r_mcangle_it 3.282 r_mcangle_other 3.282 r_scangle_other 2.934 r_mcbond_it 1.884 r_mcbond_other 1.884 r_scbond_it 1.677 r_scbond_other 1.677 r_angle_refined_deg 1.145 r_angle_other_deg 0.853 r_chiral_restr 0.068 r_bond_refined_d 0.006 r_bond_other_d 0.006 r_gen_planes_refined 0.004 r_gen_planes_other 0.001 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 20692 Nucleic Acid Atoms Solvent Atoms 592 Heterogen Atoms 67
Software Software Software Name Purpose REFMAC refinement XDS data reduction xia2 data scaling PHASER phasing