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Crystal structure of the catalytic region of human MASP-2 with specific inhibitor Compound S1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Q3X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 1.5 uL of protein (0.58 mg/mL MASP2) was mixed with 1.5 uL of reservoir solution (0.1 M Tris-HCl pH 7.5, 0.2 M NaCl, 30% (w/v) PEG 6000, 10% (v/v) glycerol) and equilibrated against reservoir at 20 C. Crystals were soaked in reservoir supplemented with 20% (v/v) glycerol and 1 mM Compound S1
Crystal Properties Matthews coefficient Solvent content 2.09 41.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.84 α = 90 b = 40.81 β = 97.52 c = 101.5 γ = 90
Symmetry Space Group C 1 2 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 EIGER X 9M 2023-06-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.95375 CLSI 08ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.97 35.61 99.7 0.1458 0.994 6.6 3.7 20876 31.44
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.97 2.04 99.76 1.543 0.311 1 3.9
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.97 35.61 20876 1029 99.7 0.2011 0.2012 0.2432 0.2433 39.4
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]
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2443 Nucleic Acid Atoms Solvent Atoms 58 Heterogen Atoms 46
Software Software Software Name Purpose xia2 data reduction xia2 data scaling PHASER phasing PHENIX refinement