☰ Navigation Tabs
Human SIRT3 Recognizing H3K4cr
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GLR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 291 12% PEG4K, 0.1 M sodium malonate, pH 6.5, 5% isopropanol
Crystal Properties Matthews coefficient Solvent content 2.85 60.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 138.085 α = 90 b = 138.085 β = 90 c = 225.342 γ = 90
Symmetry Space Group P 43 21 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 MARMOSAIC 225 mm CCD 2013-07-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9791 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.95 50 99.5 19.96 7.1 51122
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 2.96 3.02
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 3GLR 2.95 39.25 43339 2319 97.9 0.22414 0.22144 0.2208 0.27519 0.2731 RANDOM 47.693
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] 0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.895 r_dihedral_angle_3_deg 18.014 r_dihedral_angle_4_deg 17.166 r_long_range_B_refined 12.239 r_long_range_B_other 12.237 r_scangle_other 7.259 r_mcangle_it 7.188 r_mcangle_other 7.187 r_dihedral_angle_1_deg 6.372 r_mcbond_other 4.654
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.895 r_dihedral_angle_3_deg 18.014 r_dihedral_angle_4_deg 17.166 r_long_range_B_refined 12.239 r_long_range_B_other 12.237 r_scangle_other 7.259 r_mcangle_it 7.188 r_mcangle_other 7.187 r_dihedral_angle_1_deg 6.372 r_mcbond_other 4.654 r_mcbond_it 4.653 r_scbond_it 4.639 r_scbond_other 4.639 r_angle_refined_deg 1.502 r_angle_other_deg 1.358 r_chiral_restr 0.071 r_bond_refined_d 0.008 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 r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12006 Nucleic Acid Atoms Solvent Atoms 181 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing