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CatM effector binding domain with its effector cis,cis-muconate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F7B PDB Entry 2F7B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 microbatch under oil 288 PEG 4000, ammonium sulfate, sodium acetate, NaCl, tris, glycerol, imidazole, microbatch under oil, temperature 288K
Crystal Properties Matthews coefficient Solvent content 2.34 47.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.568 α = 90 b = 73.108 β = 90 c = 102.627 γ = 90
Symmetry Space Group I 2 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 MARRESEARCH SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97934 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.16 59.549 97.8 0.079 42.8 5.5 13349 13349 44.08847
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 2.17 2.25 82.1 82.1 0.537 0.537 4.1 4.3 1099
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 2F7B 2.162 59.549 12611 12611 657 97.991 0.185 0.185 0.1823 0.1894 0.242 0.2438 Random 38.375
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] -0.597 1.703 -1.106
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.658 r_dihedral_angle_4_deg 21.112 r_dihedral_angle_other_3_deg 16.934 r_dihedral_angle_3_deg 12.13 r_dihedral_angle_1_deg 5.663 r_scangle_it 3.447 r_scbond_it 2.65 r_scangle_other 1.365 r_mcangle_it 1.281 r_angle_refined_deg 1.159
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.658 r_dihedral_angle_4_deg 21.112 r_dihedral_angle_other_3_deg 16.934 r_dihedral_angle_3_deg 12.13 r_dihedral_angle_1_deg 5.663 r_scangle_it 3.447 r_scbond_it 2.65 r_scangle_other 1.365 r_mcangle_it 1.281 r_angle_refined_deg 1.159 r_scbond_other 0.907 r_mcbond_it 0.845 r_angle_other_deg 0.751 r_mcangle_other 0.551 r_symmetry_vdw_refined 0.249 r_symmetry_vdw_other 0.221 r_nbd_refined 0.185 r_nbd_other 0.17 r_nbtor_refined 0.168 r_symmetry_hbond_refined 0.147 r_xyhbond_nbd_refined 0.144 r_mcbond_other 0.089 r_nbtor_other 0.081 r_chiral_restr 0.063 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1700 Nucleic Acid Atoms Solvent Atoms 202 Heterogen Atoms 15
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction MOLREP phasing