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Bifunctional chorismate mutase/cyclohexadienyl dehydratase from Aequoribacter fuscus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6CNZ chorismate mutase from Burkholderia thailandesis experimental model PDB 5HPQ cyclohexadienyl dehydratase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293.15 0.1M Bis-TRIS propane, pH=7.5
0.2 M Sodium acetate
20% w/v PEG 3350
5 mg/mL protein in 20 mM TRIS-HCl, pH=8, 150 mM NaCl
Crystal Properties Matthews coefficient Solvent content 2.1 41.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.419 α = 90 b = 98.76 β = 108.519 c = 55.336 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 2M 2021-01-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.9655 ESRF MASSIF-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 52.5 88.9 0.997 9.3 6.5 33225
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.55 1.73 69.7 0.529 1.6 6.9
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.55 52.47 33225 1578 61.729 0.2 0.1975 0.2067 0.2511 0.2526 24.704
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] 0.358 0.033 -0.22 -0.131
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.574 r_dihedral_angle_6_deg 18.548 r_dihedral_angle_3_deg 17.873 r_dihedral_angle_1_deg 8.391 r_lrange_it 6.629 r_lrange_other 6.62 r_scangle_it 5.058 r_scangle_other 5.057 r_mcangle_it 3.812 r_mcangle_other 3.811
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.574 r_dihedral_angle_6_deg 18.548 r_dihedral_angle_3_deg 17.873 r_dihedral_angle_1_deg 8.391 r_lrange_it 6.629 r_lrange_other 6.62 r_scangle_it 5.058 r_scangle_other 5.057 r_mcangle_it 3.812 r_mcangle_other 3.811 r_scbond_it 3.215 r_scbond_other 3.214 r_mcbond_it 2.509 r_mcbond_other 2.502 r_angle_refined_deg 1.575 r_angle_other_deg 0.518 r_symmetry_nbd_refined 0.249 r_nbd_refined 0.231 r_symmetry_xyhbond_nbd_refined 0.213 r_symmetry_nbd_other 0.187 r_nbtor_refined 0.178 r_nbd_other 0.163 r_xyhbond_nbd_refined 0.16 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.077 r_chiral_restr_other 0.044 r_symmetry_xyhbond_nbd_other 0.044 r_bond_refined_d 0.008 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3079 Nucleic Acid Atoms Solvent Atoms 117 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction STARANISO data scaling PHASER phasing