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The SH3 domain of MLK3 in complex with poly-proline peptide derived from Htt
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5K28
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 0.5 M Ammonium Sulphate
0.1 M Sodium Citrate pH 5.6
1.1 M Lithium Sulphate
Crystal Properties Matthews coefficient Solvent content 4.35 71.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59 α = 90 b = 59 β = 90 c = 84.36 γ = 90
Symmetry Space Group P 43 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 CCD MARMOSAIC 300 mm CCD 2016-08-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97857 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 59 98.6 0.04 0.999 23.56 7.6 10431
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.12 97.6 0.674 0.843 2.46 6.2
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 5K28 2 59 9765 544 97.43 0.19951 0.19625 0.2145 0.25977 0.2652 RANDOM 60.496
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] 1.73 1.73 -3.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.665 r_dihedral_angle_4_deg 17.108 r_dihedral_angle_3_deg 13.066 r_long_range_B_other 10.609 r_long_range_B_refined 10.601 r_scangle_other 8.814 r_mcangle_it 6.563 r_mcangle_other 6.555 r_dihedral_angle_1_deg 6.313 r_scbond_it 6.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.665 r_dihedral_angle_4_deg 17.108 r_dihedral_angle_3_deg 13.066 r_long_range_B_other 10.609 r_long_range_B_refined 10.601 r_scangle_other 8.814 r_mcangle_it 6.563 r_mcangle_other 6.555 r_dihedral_angle_1_deg 6.313 r_scbond_it 6.02 r_scbond_other 6.014 r_mcbond_other 4.926 r_mcbond_it 4.923 r_angle_refined_deg 1.751 r_angle_other_deg 0.983 r_chiral_restr 0.114 r_bond_refined_d 0.019 r_gen_planes_refined 0.011 r_bond_other_d 0.005 r_gen_planes_other 0.002 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 542 Nucleic Acid Atoms Solvent Atoms 30 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction ARP/wARP model building MOLREP phasing