☰ Navigation Tabs
A chimeric alpha+alpha/beta peptide based on the CHR domain sequence of gp41
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3F4Z PDB entry 3F4Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 0.3 M NaCl, 0.1 M Tris pH 8.5, 35% w/v PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.72 28.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 33.036 α = 90 b = 33.036 β = 90 c = 48.9 γ = 120
Symmetry Space Group P 31 2 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 MARMOSAIC 225 mm CCD 2008-02-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97857 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.35 50 99.3 0.042 44.2 10.4 7108
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 3F4Z 1.35 25 6749 333 99.26 0.14401 0.14274 0.1432 0.17092 0.1676 RANDOM 19.13
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] 1.18 0.59 1.18 -1.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.368 r_sphericity_free 16.897 r_dihedral_angle_3_deg 16.174 r_scangle_it 10.301 r_sphericity_bonded 6.753 r_scbond_it 6.687 r_dihedral_angle_1_deg 5.316 r_mcangle_it 4.43 r_rigid_bond_restr 3.506 r_dihedral_angle_4_deg 3.466
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.368 r_sphericity_free 16.897 r_dihedral_angle_3_deg 16.174 r_scangle_it 10.301 r_sphericity_bonded 6.753 r_scbond_it 6.687 r_dihedral_angle_1_deg 5.316 r_mcangle_it 4.43 r_rigid_bond_restr 3.506 r_dihedral_angle_4_deg 3.466 r_mcbond_it 2.965 r_angle_refined_deg 1.916 r_mcbond_other 1.428 r_angle_other_deg 1.352 r_chiral_restr 0.15 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 301 Nucleic Acid Atoms Solvent Atoms 28 Heterogen Atoms 1
Software Software Software Name Purpose MD2 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling