☰ Navigation Tabs
Crystal structure of the PDZ domain of human dishevelled 2 (homologous to Drosophila dsh)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1L6O PDB entry 1L6O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 0.2M Ammonium acetate, 0.1M Bis-tris pH 5.5, 25% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.86 33.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.644 α = 90 b = 69.644 β = 90 c = 57.54 γ = 120
Symmetry Space Group P 61 2 2
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 2007-03-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.95370 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 1.55 34.82 99.6 0.046 0.046 15.3 14.9 12446 12446
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 1.55 1.61 96.1 0.468 0.468 5.6 12.2
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 1L6O 1.55 34.82 11818 11818 599 99.85 0.21217 0.21217 0.21081 0.2163 0.23982 0.2435 RANDOM 22.157
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] 0.65 0.32 0.65 -0.97
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.743 r_dihedral_angle_4_deg 21.367 r_dihedral_angle_3_deg 14.126 r_scangle_it 7.61 r_dihedral_angle_1_deg 6.138 r_scbond_it 6.08 r_mcangle_it 4.451 r_mcbond_it 3.656 r_angle_refined_deg 1.549 r_mcbond_other 1.437
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.743 r_dihedral_angle_4_deg 21.367 r_dihedral_angle_3_deg 14.126 r_scangle_it 7.61 r_dihedral_angle_1_deg 6.138 r_scbond_it 6.08 r_mcangle_it 4.451 r_mcbond_it 3.656 r_angle_refined_deg 1.549 r_mcbond_other 1.437 r_angle_other_deg 0.932 r_symmetry_vdw_other 0.257 r_symmetry_vdw_refined 0.246 r_symmetry_hbond_refined 0.212 r_nbd_refined 0.188 r_nbd_other 0.185 r_nbtor_refined 0.174 r_xyhbond_nbd_refined 0.133 r_chiral_restr 0.093 r_nbtor_other 0.09 r_bond_refined_d 0.014 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 668 Nucleic Acid Atoms Solvent Atoms 42 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MAR345 data collection MOSFLM data reduction SCALA data scaling PHASER phasing