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Crystal structure of MASP-1 CUB2 domain bound to Ethylamine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3POF PDB ENTRY 3POF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 279 1.5M Lithium sulfate, 100mM Tirs buffer, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 279K
Crystal Properties Matthews coefficient Solvent content 3.23 61.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.48 α = 90 b = 100.48 β = 90 c = 100.48 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 2010-09-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9795 Diamond I02
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 1.45 30 99.1 0.079 15.67 4.09 59331
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 1.45 1.54 96.3 0.306 4.9 3.99 36708
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 3POF 1.451 29.01 56325 2965 100 0.12627 0.12627 0.12474 0.1247 0.15549 0.1525 RANDOM 10.614
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 35.136 r_dihedral_angle_4_deg 26.034 r_dihedral_angle_3_deg 14.077 r_scangle_it 8.008 r_dihedral_angle_1_deg 6.629 r_scbond_it 5.753 r_mcangle_it 4.13 r_mcbond_it 2.857 r_rigid_bond_restr 2.699 r_angle_refined_deg 2.241
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.136 r_dihedral_angle_4_deg 26.034 r_dihedral_angle_3_deg 14.077 r_scangle_it 8.008 r_dihedral_angle_1_deg 6.629 r_scbond_it 5.753 r_mcangle_it 4.13 r_mcbond_it 2.857 r_rigid_bond_restr 2.699 r_angle_refined_deg 2.241 r_angle_other_deg 1.435 r_mcbond_other 1.349 r_chiral_restr 0.161 r_bond_refined_d 0.029 r_gen_planes_refined 0.013 r_gen_planes_other 0.005 r_bond_other_d 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 278 Heterogen Atoms 23
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling