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Crystal structure of the complex of PF-3450074 with an engineered HIV capsid N terminal domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other TRUNCATED MODEL OF N TERMINAL CAPSID
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 2ULOF PROTEIN (30MG/ML)AND 2UL OF WELL SOLUTION (20% PEG 8000, 100 MM PHOSPHATE-CITRATE PH 4.2 AND 200 MM SODIUM CHLORIDE
Crystal Properties Matthews coefficient Solvent content 1.8 31.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.756 α = 90 b = 71.035 β = 90.41 c = 41.419 γ = 90
Symmetry Space Group P 1 21 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 CCD ADSC CCD MIRRORS 2006-11-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 1.4 30 98.8 0.06 3.4 44735 2
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) 1 1.4 1.48 99.4 0.06 3.4
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT TRUNCATED MODEL OF N TERMINAL CAPSID 1.4 20.72 44702 100 0.19546 0.19546 0.254 RANDOM 21.093
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] -0.96 0.24 -0.05 1.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.521 r_dihedral_angle_4_deg 24.738 r_dihedral_angle_3_deg 14.061 r_dihedral_angle_1_deg 6.237 r_scangle_it 3.748 r_scbond_it 2.232 r_angle_refined_deg 1.385 r_mcangle_it 1.368 r_mcbond_it 0.846 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.521 r_dihedral_angle_4_deg 24.738 r_dihedral_angle_3_deg 14.061 r_dihedral_angle_1_deg 6.237 r_scangle_it 3.748 r_scbond_it 2.232 r_angle_refined_deg 1.385 r_mcangle_it 1.368 r_mcbond_it 0.846 r_nbtor_refined 0.314 r_nbd_refined 0.234 r_symmetry_vdw_refined 0.219 r_symmetry_hbond_refined 0.18 r_xyhbond_nbd_refined 0.165 r_chiral_restr 0.081 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 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_refined 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2124 Nucleic Acid Atoms Solvent Atoms 382 Heterogen Atoms 64
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing