☰ Navigation Tabs
Crystal structure of C-terminal domain of Human acyl-CoA thioesterase 7
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VPM PDB entry 1VPM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 0.1M Bis-Tris, 0.2mM MgCl2, 20% PEG 3350, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.56 51.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.95 α = 79.61 b = 81.6 β = 89.7 c = 105.1 γ = 74.12
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 2007-07-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.93300 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.8 20 95.3 0.091 9.65 3.8 59646 59646 90
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 2.8 2.9 97.4 0.602 2.43 3.9
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 1VPM 2.8 19.87 56660 2984 95.56 0.2171 0.21593 0.2073 0.23921 0.228 RANDOM 84.951
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 29.653 r_dihedral_angle_3_deg 18.167 r_dihedral_angle_4_deg 12.325 r_scangle_it 8.911 r_dihedral_angle_1_deg 6.189 r_scbond_it 5.645 r_mcangle_it 3.658 r_mcbond_it 2.054 r_angle_refined_deg 1.42 r_symmetry_vdw_refined 0.373
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.653 r_dihedral_angle_3_deg 18.167 r_dihedral_angle_4_deg 12.325 r_scangle_it 8.911 r_dihedral_angle_1_deg 6.189 r_scbond_it 5.645 r_mcangle_it 3.658 r_mcbond_it 2.054 r_angle_refined_deg 1.42 r_symmetry_vdw_refined 0.373 r_symmetry_hbond_refined 0.345 r_nbtor_refined 0.327 r_nbd_refined 0.238 r_xyhbond_nbd_refined 0.165 r_chiral_restr 0.086 r_bond_refined_d 0.015 r_gen_planes_refined 0.004 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 14037 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement ProDC data collection XDS data reduction XSCALE data scaling BALBES phasing