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Crystal structure of MASP-1 CUB2 domain in complex with the collagen-like domain of MBL
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DEM PDB ENTRY 3DEM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 28% PEG 8000, 50mM Tris, pH 8.0, 4mM CaCl2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.26 45.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.2 α = 90 b = 52.56 β = 90 c = 57.75 γ = 90
Symmetry Space Group P 21 21 2
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 QUANTUM 315 2010-05-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9184 Diamond I04
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 1.8 30 99.6 0.061 25.76 4.3 17822 17755
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 1.8 1.91 99.3 0.307 5.38 4.4 2795
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 PDB ENTRY 3DEM 1.801 26.44 17822 16865 888 100 0.20069 0.20069 0.19801 0.1965 0.25213 0.2516 RANDOM 24.129
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] 0.76 -0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.244 r_dihedral_angle_4_deg 28.942 r_dihedral_angle_3_deg 15.51 r_dihedral_angle_1_deg 6.499 r_scangle_it 5.94 r_scbond_it 3.605 r_mcangle_it 2.275 r_angle_refined_deg 2.194 r_mcbond_it 1.336 r_chiral_restr 0.151
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.244 r_dihedral_angle_4_deg 28.942 r_dihedral_angle_3_deg 15.51 r_dihedral_angle_1_deg 6.499 r_scangle_it 5.94 r_scbond_it 3.605 r_mcangle_it 2.275 r_angle_refined_deg 2.194 r_mcbond_it 1.336 r_chiral_restr 0.151 r_bond_refined_d 0.023 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1424 Nucleic Acid Atoms Solvent Atoms 184 Heterogen Atoms 1
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling