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An unusual natural product primary sulfonamide: synthesis, carbonic anhydrase inhibition and protein x-ray structure of Psammaplin C
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5A6H
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 150 NL PROTEIN AT 5.5 MG/ML PLUS 120 NL RESERVOIR AND 30 NL SEEDS IN SITTING DROP PLATES. RESERVOIR WAS 2.6 TO 2.8 M AMMONIUM SULFATE PLUS 100 MM TRIS PH 8.5
Crystal Properties Matthews coefficient Solvent content 2.09 41.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.88 α = 90 b = 41.28 β = 104.11 c = 71.788 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 CCD ADSC CCD 2015-11-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 Australian Synchrotron MX1
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 1.35 41.3 95.7 0.07 19.1 7.6 50188
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.35 1.37 90.5 0.78 2.4 7.1
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 5A6H 1.35 69.62 47704 2467 95.38 0.12909 0.1275 0.1382 0.16005 0.1712 RANDOM 15.29
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] -0.09 0.03 0.18 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.53 r_sphericity_free 30.807 r_dihedral_angle_4_deg 19.113 r_dihedral_angle_3_deg 12.126 r_sphericity_bonded 9.084 r_dihedral_angle_1_deg 6.572 r_rigid_bond_restr 4.438 r_scbond_it 2.669 r_angle_refined_deg 1.862 r_mcangle_it 1.704
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.53 r_sphericity_free 30.807 r_dihedral_angle_4_deg 19.113 r_dihedral_angle_3_deg 12.126 r_sphericity_bonded 9.084 r_dihedral_angle_1_deg 6.572 r_rigid_bond_restr 4.438 r_scbond_it 2.669 r_angle_refined_deg 1.862 r_mcangle_it 1.704 r_mcbond_it 1.342 r_mcbond_other 1.334 r_angle_other_deg 1.086 r_chiral_restr 0.109 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_gen_planes_other 0.004 r_bond_other_d 0.003 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2045 Nucleic Acid Atoms Solvent Atoms 261 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing