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Complex of human Sirt3 with Bromo-Resveratrol and Fluor-De-Lys peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4H8D PDB ENTRY 4H8D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 200 MM NACL,100 MM HEPES PH 7, 10% (V/V) ISOPROPANOL
Crystal Properties Matthews coefficient Solvent content 2.51 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.82 α = 90 b = 114.82 β = 90 c = 123.75 γ = 120
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 COLLIMATOR 2011-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 2.1 46.1 99.9 0.08 14.3 3.9 35487 -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 2.1 2.2 99.9 0.72 2.1 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 4H8D 2.1 46.13 17585 925 99.97 0.18305 0.18046 0.1899 0.23402 0.2383 RANDOM 39.286
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] -0.71 -0.35 -0.71 2.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.827 r_dihedral_angle_4_deg 18.029 r_dihedral_angle_3_deg 14.646 r_long_range_B_refined 9.015 r_long_range_B_other 9.014 r_dihedral_angle_1_deg 6.674 r_scangle_other 3.588 r_mcangle_it 2.81 r_mcangle_other 2.809 r_scbond_it 2.382
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.827 r_dihedral_angle_4_deg 18.029 r_dihedral_angle_3_deg 14.646 r_long_range_B_refined 9.015 r_long_range_B_other 9.014 r_dihedral_angle_1_deg 6.674 r_scangle_other 3.588 r_mcangle_it 2.81 r_mcangle_other 2.809 r_scbond_it 2.382 r_scbond_other 2.381 r_angle_refined_deg 2.118 r_mcbond_it 1.715 r_mcbond_other 1.715 r_angle_other_deg 1.069 r_chiral_restr 0.113 r_bond_refined_d 0.019 r_gen_planes_refined 0.011 r_bond_other_d 0.003 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 2113 Nucleic Acid Atoms Solvent Atoms 136 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing