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Crystal Structure of the SH3-Guanylate kinase core domain of ZO-1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 295 0.1 M Hepes pH 7.5, 7% isopropanol, 15-20% PEG3350, 1-5 mM DTT, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.8 56.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.8 α = 90 b = 125.8 β = 90 c = 35.6 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 2008-07-25 MIRAS
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 0.9794 APS 22-ID
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 2.6 30 99.7 0.085 15.5 8.5 10199 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.6 2.65 58.8 0.085 1.9 4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MIRAS THROUGHOUT 2.6 27.24 9187 1010 99.64 0.21288 0.20528 0.2444 0.28545 0.3163 RANDOM 58.391
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] -0.3 -0.15 -0.3 0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.14 r_dihedral_angle_4_deg 22.112 r_dihedral_angle_3_deg 19.943 r_dihedral_angle_1_deg 6.32 r_scangle_it 2.242 r_scbond_it 1.371 r_angle_refined_deg 1.279 r_mcangle_it 0.879 r_mcbond_it 0.543 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.14 r_dihedral_angle_4_deg 22.112 r_dihedral_angle_3_deg 19.943 r_dihedral_angle_1_deg 6.32 r_scangle_it 2.242 r_scbond_it 1.371 r_angle_refined_deg 1.279 r_mcangle_it 0.879 r_mcbond_it 0.543 r_nbtor_refined 0.307 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.173 r_xyhbond_nbd_refined 0.16 r_symmetry_hbond_refined 0.119 r_chiral_restr 0.081 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2026 Nucleic Acid Atoms Solvent Atoms 73 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction XDS data scaling XDS data reduction