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Hexameric HIV-1 CA in complex with DDD00100452
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5HGM Hexameric HIV-1 CA in complex with dATP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 290 0.1M Tris buffer, pH 8.0 to 9.0, 10-15% PEG550MME, 0.15M KSCN
Crystal Properties Matthews coefficient Solvent content 2.65 53.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.685 α = 90 b = 90.685 β = 90 c = 56.763 γ = 120
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 EIGER2 XE 16M 2016-07-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.976 Diamond I03
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 1.63 56.8 91.3 0.06 0.99 19.5 9.6 30451
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.63 1.635 96.5 0.99 0.69 2 8.6
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 MOLECULAR REPLACEMENT THROUGHOUT 1.63 56.8 28974 1475 91.22 0.17814 0.177 0.1856 0.19971 0.2071 RANDOM 31.142
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] 0.15 0.07 0.15 -0.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.712 r_dihedral_angle_4_deg 24.957 r_dihedral_angle_3_deg 14.377 r_long_range_B_refined 7.669 r_long_range_B_other 7.667 r_dihedral_angle_1_deg 6.535 r_scangle_other 5.377 r_mcangle_other 3.81 r_mcangle_it 3.805 r_angle_other_deg 3.802
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.712 r_dihedral_angle_4_deg 24.957 r_dihedral_angle_3_deg 14.377 r_long_range_B_refined 7.669 r_long_range_B_other 7.667 r_dihedral_angle_1_deg 6.535 r_scangle_other 5.377 r_mcangle_other 3.81 r_mcangle_it 3.805 r_angle_other_deg 3.802 r_scbond_it 3.655 r_scbond_other 3.653 r_mcbond_it 2.642 r_mcbond_other 2.631 r_angle_refined_deg 1.983 r_chiral_restr 0.095 r_gen_planes_other 0.018 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d 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 1701 Nucleic Acid Atoms Solvent Atoms 222 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement XDS data reduction autoPROC data scaling MOLREP phasing