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Crystal structure of ENL (MLLT1) in complex with acetyllysine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5J9S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 25% PEG 1500
Crystal Properties Matthews coefficient Solvent content 2.15 42.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.31 α = 90 b = 49.31 β = 90 c = 129.6 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 PIXEL DECTRIS PILATUS 2M-F 2018-06-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.0000 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 2.3 64.8 99.9 0.147 0.055 0.998 9.9 8.6 7707 31.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38 100 0.992 0.378 0.469 2.1 8.6
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5j9s 2.3 46.09 7263 392 99.84 0.2357 0.23249 0.29598 0.2579 RANDOM 38.047
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] -1.45 -1.45 2.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.772 r_dihedral_angle_4_deg 20.682 r_dihedral_angle_3_deg 13.901 r_dihedral_angle_1_deg 6.612 r_long_range_B_refined 3.975 r_long_range_B_other 3.974 r_mcangle_it 1.525 r_mcangle_other 1.525 r_angle_refined_deg 1.281 r_scangle_other 1.213
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.772 r_dihedral_angle_4_deg 20.682 r_dihedral_angle_3_deg 13.901 r_dihedral_angle_1_deg 6.612 r_long_range_B_refined 3.975 r_long_range_B_other 3.974 r_mcangle_it 1.525 r_mcangle_other 1.525 r_angle_refined_deg 1.281 r_scangle_other 1.213 r_angle_other_deg 1.058 r_mcbond_it 0.837 r_mcbond_other 0.836 r_scbond_it 0.678 r_scbond_other 0.671 r_chiral_restr 0.046 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 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 1164 Nucleic Acid Atoms Solvent Atoms 33 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling PHASER phasing