☰ Navigation Tabs
Crystal structure of human Sirt2 in complex with ADPR and CHIC35
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5D7O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.75 293 18 % (w/v) PEG 10000, 0.1 M Bis-Tris
Crystal Properties Matthews coefficient Solvent content 2.52 51.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.34 α = 90 b = 78.17 β = 90 c = 114.68 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2013-09-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
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 2.01 46.23 99.6 0.109 7.6 4 46758
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 2.01 2.06 0.716
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 5D7O 2.01 46.23 44359 2349 99.4 0.21166 0.21097 0.2186 0.22459 0.2339 RANDOM 34.278
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] 0.94 0.06 -1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.5 r_dihedral_angle_3_deg 14.166 r_dihedral_angle_4_deg 13.832 r_dihedral_angle_1_deg 6.014 r_long_range_B_refined 4.046 r_long_range_B_other 4.03 r_scangle_other 2.371 r_mcangle_other 2.143 r_mcangle_it 2.142 r_scbond_it 1.412
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.5 r_dihedral_angle_3_deg 14.166 r_dihedral_angle_4_deg 13.832 r_dihedral_angle_1_deg 6.014 r_long_range_B_refined 4.046 r_long_range_B_other 4.03 r_scangle_other 2.371 r_mcangle_other 2.143 r_mcangle_it 2.142 r_scbond_it 1.412 r_scbond_other 1.409 r_mcbond_it 1.311 r_mcbond_other 1.311 r_angle_refined_deg 1.308 r_angle_other_deg 0.784 r_chiral_restr 0.069 r_bond_refined_d 0.007 r_bond_other_d 0.006 r_gen_planes_refined 0.004 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 4775 Nucleic Acid Atoms Solvent Atoms 137 Heterogen Atoms 146
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling MOLREP phasing