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Structure of the native full-length HIV-1 capsid protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 PEG3350, NaI, MMT
Crystal Properties Matthews coefficient Solvent content 2.75 55.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.328 α = 90 b = 92.328 β = 90 c = 57.34 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 120 IMAGE PLATE RIGAKU RAXIS IV++ 2013-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.43 80 99.7 0.077 0.077 0.026 9.2 10.9 10588
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.43 2.47 100 0.399 0.694 10.1 522
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2.43 19 9555 475 94.44 0.2229 0.2215 0.249 0.2222 RANDOM 47.815
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] 0.32 0.16 0.32 -1.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.335 r_dihedral_angle_4_deg 16.625 r_dihedral_angle_3_deg 11.6 r_mcangle_it 5.799 r_dihedral_angle_1_deg 4.497 r_mcbond_it 3.758 r_mcbond_other 3.757 r_angle_refined_deg 0.805 r_angle_other_deg 0.679 r_chiral_restr 0.045
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.335 r_dihedral_angle_4_deg 16.625 r_dihedral_angle_3_deg 11.6 r_mcangle_it 5.799 r_dihedral_angle_1_deg 4.497 r_mcbond_it 3.758 r_mcbond_other 3.757 r_angle_refined_deg 0.805 r_angle_other_deg 0.679 r_chiral_restr 0.045 r_bond_refined_d 0.004 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1680 Nucleic Acid Atoms Solvent Atoms 75 Heterogen Atoms 9
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction