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compound 1 bound KMT9 crystal structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6H1D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 1.1 M Na3Citrate, 0.1M Tris 8.5
Crystal Properties Matthews coefficient Solvent content 3.14 60.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.027 α = 90 b = 110.027 β = 90 c = 129.737 γ = 120
Symmetry Space Group P 61 2 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 PIXEL DECTRIS PILATUS 2M 2018-10-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.0 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.6 47.64 100 0.076 1 29.8 39 61536
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 1.6 1.63 100 0.765
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 1.6 47.64 61468 3057 99.99 0.16 0.159 0.1641 0.1866 0.1657 29.863
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] -0.225 -0.113 -0.225 0.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.775 r_lrange_it 14.345 r_lrange_other 14.301 r_dihedral_angle_3_deg 12.352 r_scangle_it 10.733 r_scangle_other 10.731 r_mcangle_other 7.959 r_mcangle_it 7.947 r_scbond_it 7.358 r_scbond_other 7.356
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.775 r_lrange_it 14.345 r_lrange_other 14.301 r_dihedral_angle_3_deg 12.352 r_scangle_it 10.733 r_scangle_other 10.731 r_mcangle_other 7.959 r_mcangle_it 7.947 r_scbond_it 7.358 r_scbond_other 7.356 r_dihedral_angle_2_deg 7.065 r_dihedral_angle_1_deg 6.467 r_mcbond_it 5.303 r_mcbond_other 5.272 r_rigid_bond_restr 3.835 r_angle_refined_deg 1.856 r_angle_other_deg 0.612 r_nbd_refined 0.231 r_nbd_other 0.209 r_symmetry_nbd_other 0.19 r_nbtor_refined 0.175 r_symmetry_nbd_refined 0.154 r_symmetry_xyhbond_nbd_refined 0.141 r_dihedral_angle_other_2_deg 0.128 r_xyhbond_nbd_refined 0.116 r_chiral_restr 0.092 r_symmetry_nbtor_other 0.085 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2435 Nucleic Acid Atoms Solvent Atoms 116 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling PHASER phasing