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Structure of Legionella fallonii DegQ (Delta-PDZ2 variant)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PV2 PDB ENTRY 3PV2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 292 23.5% (v/v) PEG 400, 100 mM CdCl2, 100 mM acetate pH 4.5, vapor diffusion, hanging drop, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.14 42.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.89 α = 90 b = 110.89 β = 90 c = 67.933 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 RAYONIX MX-225 2010-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
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 3.1 55.46 99.8 0.135 4.3 2.6 5626 5626
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 3.1 3.27 99.8 0.401 0.401 1.8 2.6 824
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 PDB ENTRY 3PV2 3.1 55.46 5367 258 99.7 0.24584 0.24187 0.2369 0.32997 0.3161 RANDOM 95.7645
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] -3.31 -1.66 -3.31 4.97
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.913 r_dihedral_angle_3_deg 22.434 r_dihedral_angle_4_deg 19.217 r_dihedral_angle_1_deg 7.281 r_scangle_it 1.507 r_angle_refined_deg 1.377 r_mcangle_it 0.985 r_angle_other_deg 0.898 r_scbond_it 0.839 r_mcbond_it 0.536
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.913 r_dihedral_angle_3_deg 22.434 r_dihedral_angle_4_deg 19.217 r_dihedral_angle_1_deg 7.281 r_scangle_it 1.507 r_angle_refined_deg 1.377 r_mcangle_it 0.985 r_angle_other_deg 0.898 r_scbond_it 0.839 r_mcbond_it 0.536 r_chiral_restr 0.066 r_mcbond_other 0.049 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2081 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 1
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction PHASER phasing