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Crystal structure of PICK1 in complex with the small molecule inhibitor 1o
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HPK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 25% PEG3350, 0.1M BisTRIS pH 6.4
Crystal Properties Matthews coefficient Solvent content 2.44 49.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.311 α = 90 b = 54.311 β = 90 c = 77.633 γ = 120
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 225 mm CCD 2012-03-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.98 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.69 47.03 99.1 0.062 0.069 0.03 0.999 16.4 5.1 28410
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.69 1.72 97.8 1.243 1.402 0.635 0.494 4.4
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 3HPK 1.69 25.63 27103 1424 99.58 0.1588 0.157 0.1578 0.1897 0.1848 RANDOM 28.638
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] 0.06 0.06 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.37 r_dihedral_angle_4_deg 29.542 r_dihedral_angle_3_deg 17.926 r_dihedral_angle_1_deg 7.254 r_angle_refined_deg 2.856 r_angle_other_deg 1.522 r_chiral_restr 0.196 r_bond_refined_d 0.032 r_gen_planes_refined 0.015 r_bond_other_d 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.37 r_dihedral_angle_4_deg 29.542 r_dihedral_angle_3_deg 17.926 r_dihedral_angle_1_deg 7.254 r_angle_refined_deg 2.856 r_angle_other_deg 1.522 r_chiral_restr 0.196 r_bond_refined_d 0.032 r_gen_planes_refined 0.015 r_bond_other_d 0.003 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1266 Nucleic Acid Atoms Solvent Atoms 247 Heterogen Atoms 70
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction MOLREP phasing