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HIV-1 CA N-terminal domain, open conformation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3H4E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.3 290 PEG3350 (20%), Ammonium chloride (0.2M, pH 6.3)
Crystal Properties Matthews coefficient Solvent content 2.07 40.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.72 α = 90 b = 23.85 β = 96.31 c = 129.549 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 IMAGE PLATE MAR scanner 345 mm plate 2012-09-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 1.763 128.765 91.9 0.065 0.074 0.033 13.3 4.6 25066 25066
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.763 1.86 80.6 0.227 0.227 0.115 3.2 4.6 3188
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 3H4E 1.763 128.76 23827 1229 92.4 0.1916 0.1899 0.2029 0.2241 0.2367 RANDOM 28.533
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] 0.1 1 -0.79 0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.391 r_dihedral_angle_4_deg 16.35 r_dihedral_angle_3_deg 13.564 r_dihedral_angle_1_deg 5.134 r_mcangle_it 3.454 r_mcbond_it 2.524 r_mcbond_other 2.506 r_angle_refined_deg 1.222 r_angle_other_deg 1.122 r_chiral_restr 0.067
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.391 r_dihedral_angle_4_deg 16.35 r_dihedral_angle_3_deg 13.564 r_dihedral_angle_1_deg 5.134 r_mcangle_it 3.454 r_mcbond_it 2.524 r_mcbond_other 2.506 r_angle_refined_deg 1.222 r_angle_other_deg 1.122 r_chiral_restr 0.067 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.004 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2233 Nucleic Acid Atoms Solvent Atoms 338 Heterogen Atoms 1
Software Software Software Name Purpose MAR345dtb data collection SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction iMOSFLM data reduction