☰ Navigation Tabs
Scorpion toxin LQH-alpha-IT
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SEG PDB ENTRY 1SEG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0.01M Hexadecyltrimethylammonium Bromide, 0.5M NaCl, 0.01M MgCl, 0.01M MgCl, pH 7.5, vapor diffusion, hanging drop, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.08 60.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 129.714 α = 90 b = 129.714 β = 90 c = 129.714 γ = 90
Symmetry Space Group F 4 3 2
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 4 Mirrors 2003-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.933 ESRF ID14-4
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 1.1 74.95 99.9 0.067 0.067 40.1 28.2 38414 38414 9.95
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.1 1.12 99.4 1887
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1SEG 1.1 40 38414 36525 1925 99.93 0.131 0.13082 0.13044 0.1309 0.13794 0.1397 RANDOM 16.083
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.729 r_sphericity_free 23.275 r_dihedral_angle_4_deg 18.638 r_dihedral_angle_3_deg 12.515 r_scangle_it 12.318 r_scbond_it 10.348 r_sphericity_bonded 10.121 r_mcangle_it 7.522 r_dihedral_angle_1_deg 6.616 r_mcbond_it 6.258
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.729 r_sphericity_free 23.275 r_dihedral_angle_4_deg 18.638 r_dihedral_angle_3_deg 12.515 r_scangle_it 12.318 r_scbond_it 10.348 r_sphericity_bonded 10.121 r_mcangle_it 7.522 r_dihedral_angle_1_deg 6.616 r_mcbond_it 6.258 r_rigid_bond_restr 6.011 r_mcbond_other 3.686 r_angle_other_deg 2.075 r_angle_refined_deg 1.771 r_symmetry_vdw_refined 0.398 r_symmetry_vdw_other 0.335 r_symmetry_hbond_refined 0.286 r_nbd_refined 0.261 r_nbd_other 0.228 r_nbtor_refined 0.19 r_xyhbond_nbd_refined 0.19 r_chiral_restr 0.142 r_nbtor_other 0.101 r_metal_ion_refined 0.092 r_symmetry_metal_ion_refined 0.05 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.005 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 550 Nucleic Acid Atoms Solvent Atoms 90 Heterogen Atoms 50
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction ProDC data collection BEAST phasing