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Catalytic and ubiqutin-associated domains of MARK2/PAR-1: Wild type
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y8G PDB ENTRY 1Y8G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 PEG 3350, Ammonium Sulphate, BIS-TRIS, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.76 55.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.269 α = 90 b = 120.269 β = 90 c = 99.533 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 MARRESEARCH 2004-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 0.8046 EMBL/DESY, HAMBURG X13
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.9 46.14 99.9 0.067 27.9 6.6 18222 18222
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.9 2.95 100 3.3
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 PDB ENTRY 1Y8G 2.9 46.14 18222 18222 942 99.92 0.19916 0.19916 0.19541 0.1929 0.27006 0.2649 RANDOM 62.182
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] 0.5 0.25 0.5 -0.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.159 r_dihedral_angle_3_deg 21.13 r_dihedral_angle_4_deg 18.145 r_dihedral_angle_1_deg 7.071 r_angle_refined_deg 2.002 r_nbtor_refined 0.334 r_symmetry_hbond_refined 0.308 r_nbd_refined 0.258 r_symmetry_vdw_refined 0.219 r_xyhbond_nbd_refined 0.163
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.159 r_dihedral_angle_3_deg 21.13 r_dihedral_angle_4_deg 18.145 r_dihedral_angle_1_deg 7.071 r_angle_refined_deg 2.002 r_nbtor_refined 0.334 r_symmetry_hbond_refined 0.308 r_nbd_refined 0.258 r_symmetry_vdw_refined 0.219 r_xyhbond_nbd_refined 0.163 r_chiral_restr 0.125 r_bond_refined_d 0.02 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4664 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement