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Crystal structure of the catalytic region of human MASP-2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ELV PDB ENTRY 1ELV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 293 PEG 6000, sodium chloride, glycerol, Tris-HCl , pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 7.50
Crystal Properties Matthews coefficient Solvent content 2.11 41.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.95 α = 96.44 b = 41.521 β = 91.77 c = 102.994 γ = 119.52
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH MIRRORS 2001-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LURE BEAMLINE DW32 LURE DW32
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 2.23 50.64 94.8 0.083 7.6 1.8 27022 23.9
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 2.23 2.29 74.3 0.255 2.9 1.6
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 (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 1ELV 2.23 50.64 27020 25664 1356 94.8 0.176 0.174 0.1795 0.224 0.2274 RANDOM 18.11
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] -0.46 0.18 0.19 -0.7 -0.26 1.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.139 r_scangle_it 2.305 r_mcangle_it 2.213 r_scbond_it 1.593 r_mcbond_it 1.365 r_angle_refined_deg 0.904 r_symmetry_vdw_refined 0.266 r_nbd_refined 0.218 r_xyhbond_nbd_refined 0.199 r_symmetry_hbond_refined 0.191
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.139 r_scangle_it 2.305 r_mcangle_it 2.213 r_scbond_it 1.593 r_mcbond_it 1.365 r_angle_refined_deg 0.904 r_symmetry_vdw_refined 0.266 r_nbd_refined 0.218 r_xyhbond_nbd_refined 0.199 r_symmetry_hbond_refined 0.191 r_chiral_restr 0.058 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4818 Nucleic Acid Atoms Solvent Atoms 362 Heterogen Atoms 44
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling BEAST phasing