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Crystal structure of MASP-1 CUB2 domain bound to Ca2+
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3POE PDB ENTRY 3POE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 279 1.5M lithium sulfate, 100mM tris buffer, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 279K
Crystal Properties Matthews coefficient Solvent content 3.23 61.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.46 α = 90 b = 100.46 β = 90 c = 100.46 γ = 90
Symmetry Space Group P 21 3
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 2010-07-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
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 1.5 50 99.6 0.076 18.5 4.92 53908
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 1.5 1.59 99.7 0.331 4.38 4.92 42562
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 (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 3POE 1.501 41.01 51198 2695 100 0.11896 0.11896 0.11741 0.1316 0.14886 0.156 RANDOM 13.404
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.565 r_dihedral_angle_4_deg 23.968 r_dihedral_angle_3_deg 13.747 r_scangle_it 8.307 r_dihedral_angle_1_deg 6.474 r_scbond_it 6.02 r_mcangle_it 4.457 r_mcbond_it 2.966 r_rigid_bond_restr 2.868 r_angle_refined_deg 2.396
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.565 r_dihedral_angle_4_deg 23.968 r_dihedral_angle_3_deg 13.747 r_scangle_it 8.307 r_dihedral_angle_1_deg 6.474 r_scbond_it 6.02 r_mcangle_it 4.457 r_mcbond_it 2.966 r_rigid_bond_restr 2.868 r_angle_refined_deg 2.396 r_angle_other_deg 1.091 r_mcbond_other 1.074 r_chiral_restr 0.172 r_bond_refined_d 0.034 r_gen_planes_refined 0.013 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1817 Nucleic Acid Atoms Solvent Atoms 251 Heterogen Atoms 20
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling