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HIV-1 capsid C-terminal domain mutant (N183A)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A80 PDB entry 1A80
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 4.6 298 30% PEG 4000, 100mM ammonium acetate, 10mM MgCl2, pH 4.6, EVAPORATION, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.75 55.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.359 α = 109.2 b = 51.321 β = 109.63 c = 51.358 γ = 109.55
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 MARMOSAIC 225 mm CCD Dynamically bendable mirror 2007-05-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.044 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 42 86.3 0.025 0.025 36.4 3.1 13571 61.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.4 2.49 43.6 0.139 0.139 5 2.2 692
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1A80 2.4 41.96 12892 677 85.94 0.22269 0.22015 0.26977 0.2908 RANDOM 60.251
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] 1.68 0.78 0.77 -0.81 -1.57 -0.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.755 r_dihedral_angle_4_deg 23.891 r_dihedral_angle_3_deg 20.618 r_dihedral_angle_1_deg 6.339 r_scangle_it 3.761 r_scbond_it 2.301 r_angle_refined_deg 1.617 r_mcangle_it 1.427 r_mcbond_it 0.809 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.755 r_dihedral_angle_4_deg 23.891 r_dihedral_angle_3_deg 20.618 r_dihedral_angle_1_deg 6.339 r_scangle_it 3.761 r_scbond_it 2.301 r_angle_refined_deg 1.617 r_mcangle_it 1.427 r_mcbond_it 0.809 r_nbtor_refined 0.299 r_symmetry_vdw_refined 0.244 r_nbd_refined 0.227 r_symmetry_hbond_refined 0.21 r_xyhbond_nbd_refined 0.136 r_chiral_restr 0.092 r_bond_refined_d 0.014 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2292 Nucleic Acid Atoms Solvent Atoms 22 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement RemDAq data collection DENZO data reduction SCALEPACK data scaling PHASER phasing