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The crystal structure of the PDZ domain of human Microtubule Associated Serine/Threonine Kinase 3 (MAST3)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V90 2V90, 2VPH, 2Z17 experimental model PDB 2VPH 2V90, 2VPH, 2Z17 experimental model PDB 2Z17 2V90, 2VPH, 2Z17
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9 293 0.2 M Lithium Sulphate; 0.1 M Tris pH 9; 35% PEG4K, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.86 33.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.65 α = 90 b = 55.537 β = 90 c = 59.387 γ = 90
Symmetry Space Group P 21 21 21
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 2008-09-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.00001 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 1.2 36.59 99.7 0.087 0.087 14.1 7.1 50856 50856 11.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.2 1.26 99.2 0.292 0.292 5.4 6.5 46964
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2V90, 2VPH, 2Z17 1.2 36.59 48172 48172 2616 99.57 0.1572 0.1572 0.15646 0.165 0.1708 0.1765 RANDOM 10.112
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] -0.08 -0.02 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.568 r_dihedral_angle_4_deg 17.554 r_dihedral_angle_3_deg 13.89 r_sphericity_free 5.994 r_dihedral_angle_1_deg 5.972 r_scangle_it 3.975 r_sphericity_bonded 3.425 r_scbond_it 2.704 r_mcangle_it 2.239 r_angle_refined_deg 1.444
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.568 r_dihedral_angle_4_deg 17.554 r_dihedral_angle_3_deg 13.89 r_sphericity_free 5.994 r_dihedral_angle_1_deg 5.972 r_scangle_it 3.975 r_sphericity_bonded 3.425 r_scbond_it 2.704 r_mcangle_it 2.239 r_angle_refined_deg 1.444 r_mcbond_it 1.396 r_rigid_bond_restr 1.206 r_angle_other_deg 0.893 r_mcbond_other 0.597 r_chiral_restr 0.087 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1549 Nucleic Acid Atoms Solvent Atoms 244 Heterogen Atoms 9
Software Software Software Name Purpose MAR345 data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling