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Structure of AhSYMRK kinase domain mutant - K625E
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HGK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.2 M Calcium acetate, 0.1 M Sodium cacodylate, 40% v/v PEG 300
Crystal Properties Matthews coefficient Solvent content 2.39 48.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.905 α = 90 b = 83.905 β = 90 c = 80.497 γ = 120
Symmetry Space Group P 32 2 1
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 MARRESEARCH 2014-04-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON RRCAT INDUS-2 BEAMLINE PX-BL21 0.979470 RRCAT INDUS-2 PX-BL21
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 2.29 40.24 99.8 0.046 0.05 0.018 1 22.5 7.3 15173
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 2.29 2.37 98.4 0.424 0.458 0.17 0.923 7.1
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 3HGK 2.29 35.23 14391 750 99.66 0.2156 0.2131 0.2183 0.26 0.2609 RANDOM 65.111
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] -0.62 -0.31 -0.62 2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.845 r_dihedral_angle_4_deg 23.208 r_dihedral_angle_3_deg 17.685 r_dihedral_angle_1_deg 6.097 r_angle_other_deg 1.075 r_angle_refined_deg 1.063 r_chiral_restr 0.025 r_bond_refined_d 0.001 r_gen_planes_refined 0.001 r_bond_other_d
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.845 r_dihedral_angle_4_deg 23.208 r_dihedral_angle_3_deg 17.685 r_dihedral_angle_1_deg 6.097 r_angle_other_deg 1.075 r_angle_refined_deg 1.063 r_chiral_restr 0.025 r_bond_refined_d 0.001 r_gen_planes_refined 0.001 r_bond_other_d r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2163 Nucleic Acid Atoms Solvent Atoms 44 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PDB_EXTRACT data extraction PHASER phasing