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p15 HIV RNaseH domain with inhibitor MK3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop 6.8 298 0.1 M Sodium citrate pH 5.0, 15-20% PEG 8000, hanging drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.82 56.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.256 α = 90 b = 51.256 β = 90 c = 112.773 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 CCD Saturn 944+ SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.8 50 100 0.098 10 5.8 8172
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.8 2.9 100 0.359 5.7
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 FOURIER SYNTHESIS THROUGHOUT 2.8 34.88 7751 387 99.89 0.23227 0.22947 0.229 0.28828 0.2903 RANDOM 37.307
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] -0.17 -0.08 -0.17 0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.386 r_dihedral_angle_3_deg 17.695 r_dihedral_angle_4_deg 9.577 r_dihedral_angle_1_deg 4.764 r_angle_refined_deg 1.029 r_scangle_it 0.764 r_mcangle_it 0.693 r_scbond_it 0.427 r_mcbond_it 0.379 r_nbtor_refined 0.292
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.386 r_dihedral_angle_3_deg 17.695 r_dihedral_angle_4_deg 9.577 r_dihedral_angle_1_deg 4.764 r_angle_refined_deg 1.029 r_scangle_it 0.764 r_mcangle_it 0.693 r_scbond_it 0.427 r_mcbond_it 0.379 r_nbtor_refined 0.292 r_symmetry_vdw_refined 0.184 r_nbd_refined 0.183 r_symmetry_hbond_refined 0.116 r_xyhbond_nbd_refined 0.1 r_chiral_restr 0.064 r_metal_ion_refined 0.019 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2020 Nucleic Acid Atoms Solvent Atoms 20 Heterogen Atoms 64
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction