☰ Navigation Tabs
SIRT2 structure in complex with H3K18myr peptide collected by Laue diffraction
Serial Crystallography (SX)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9VG0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 289 Tris 8.0, 25% PEG 2000MME
Crystal Properties Matthews coefficient Solvent content 2.18 43.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.9 α = 90 b = 74.5 β = 92.4 c = 56.2 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 300 PIXEL DECTRIS PILATUS 2M 2024-07-22 L LAUE
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL03HB 0.55-1.58 SSRF BL03HB
Serial Crystallography Sample delivery method Diffraction ID Description Sample Delivery Method 1 fixed target
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 28.02 79.7 0.882 5 3.1 14079
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.16 0.662
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.1 21.908 14065 694 78.875 0.234 0.2317 0.2392 0.2826 0.289 32.387
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] 1.147 0.609 -0.171 -1.023
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.371 r_dihedral_angle_6_deg 12.66 r_dihedral_angle_1_deg 7.824 r_lrange_it 6.287 r_lrange_other 6.285 r_dihedral_angle_2_deg 4.87 r_scangle_it 4.34 r_scangle_other 4.339 r_mcangle_it 3.711 r_mcangle_other 3.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.371 r_dihedral_angle_6_deg 12.66 r_dihedral_angle_1_deg 7.824 r_lrange_it 6.287 r_lrange_other 6.285 r_dihedral_angle_2_deg 4.87 r_scangle_it 4.34 r_scangle_other 4.339 r_mcangle_it 3.711 r_mcangle_other 3.71 r_scbond_it 2.613 r_scbond_other 2.613 r_mcbond_it 2.331 r_mcbond_other 2.331 r_angle_refined_deg 1.644 r_angle_other_deg 0.523 r_nbd_refined 0.213 r_symmetry_nbd_other 0.202 r_nbd_other 0.187 r_nbtor_refined 0.183 r_xyhbond_nbd_refined 0.168 r_symmetry_nbd_refined 0.119 r_metal_ion_refined 0.118 r_symmetry_nbtor_other 0.085 r_chiral_restr 0.071 r_symmetry_xyhbond_nbd_other 0.039 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2230 Nucleic Acid Atoms Solvent Atoms 9 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement Laueprocess data reduction LSCALE data scaling PHASER phasing