☰ Navigation Tabs
Crystal Structure of the HIV Vif BC-box in Complex with Human ElonginB and ElonginC
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VCB PDB ENTRY 1vcb
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 295 0.1M Tris HCl pH 7.0, 40% PEG 350 MME, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 1.99 38.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.514 α = 90 b = 66.913 β = 90 c = 122.642 γ = 90
Symmetry Space Group P 21 21 21
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 QUANTUM 315 2008-03-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.9794 APS 24-ID-C
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 29.37 98.2 0.096 0.096 11.7 3.9 18219 -3
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 2.4 2.49 97.3 0.441 2.5 3.3 1762
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 PDB ENTRY 1vcb 2.4 29.37 17246 895 98.12 0.18826 0.18603 0.1863 0.23228 0.2318 RANDOM 41.623
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] -0.16 0.74 -0.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.849 r_dihedral_angle_3_deg 18.13 r_dihedral_angle_4_deg 15.182 r_dihedral_angle_1_deg 6.903 r_scangle_it 4.485 r_scbond_it 3.048 r_mcangle_it 2.556 r_mcbond_it 1.9 r_angle_refined_deg 1.132 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.849 r_dihedral_angle_3_deg 18.13 r_dihedral_angle_4_deg 15.182 r_dihedral_angle_1_deg 6.903 r_scangle_it 4.485 r_scbond_it 3.048 r_mcangle_it 2.556 r_mcbond_it 1.9 r_angle_refined_deg 1.132 r_nbtor_refined 0.306 r_symmetry_hbond_refined 0.213 r_nbd_refined 0.191 r_symmetry_vdw_refined 0.189 r_xyhbond_nbd_refined 0.157 r_chiral_restr 0.07 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 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 3154 Nucleic Acid Atoms Solvent Atoms 150 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction SCALEPACK data scaling PHASER phasing