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Crystal structure of human carbonic anhydrase isozyme XIII with 2-Chloro-4-[(pyrimidin-2-ylsulfanyl)acetyl]benzenesulfonamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2NNO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 291 0.1M ammonium citrate (pH 7.0), 0.1M sodium acetate (pH 4.5) and 26% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.2 44.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.182 α = 90 b = 57.47 β = 90 c = 159.467 γ = 90
Symmetry Space Group P 21 21 21
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 6M 2012-11-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.826606 PETRA III, EMBL c/o DESY P14 (MX2)
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 1.404 79.733 98.3 0.038 0.038 26.4 6.6 99914 14.992
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.48 92.6 0.262 0.262 0.31 0.12 3 6.1 13550
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 2NNO 1.404 54.07 99819 99819 9987 98.25 0.169 0.169 0.166 0.1622 0.191 0.1876 RANDOM 17.534
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] 0.31 0.32 -0.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.529 r_dihedral_angle_4_deg 16.86 r_dihedral_angle_3_deg 13.218 r_dihedral_angle_1_deg 6.778 r_scangle_it 4.783 r_scbond_it 3.202 r_mcangle_it 2.814 r_angle_refined_deg 2.577 r_mcbond_it 1.833 r_nbtor_refined 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.529 r_dihedral_angle_4_deg 16.86 r_dihedral_angle_3_deg 13.218 r_dihedral_angle_1_deg 6.778 r_scangle_it 4.783 r_scbond_it 3.202 r_mcangle_it 2.814 r_angle_refined_deg 2.577 r_mcbond_it 1.833 r_nbtor_refined 0.32 r_symmetry_vdw_refined 0.226 r_nbd_refined 0.216 r_chiral_restr 0.178 r_xyhbond_nbd_refined 0.167 r_metal_ion_refined 0.162 r_symmetry_hbond_refined 0.147 r_bond_refined_d 0.028 r_gen_planes_refined 0.015
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4108 Nucleic Acid Atoms Solvent Atoms 568 Heterogen Atoms 101
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction DNA data collection XDS data reduction MOLREP phasing