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Crystal Structure of Complement Factor D mutant S183A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DSU PDB ENTRY 1DSU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 pH 6.0
Crystal Properties Matthews coefficient Solvent content 2.17 43.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.51 α = 90 b = 49.55 β = 105.64 c = 55.48 γ = 90
Symmetry Space Group P 1 21 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 PILATUS 6M 2009-11-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 1.2 35.9 99.3 0.07 8 2.9 64058 3.5 8.535
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 1.2 1.26 98.8 0.25 3.5 2.7
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 (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 1DSU 1.2 53.43 60768 3235 99.22 0.14528 0.14364 0.1517 0.17605 0.1821 RANDOM 9.901
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] -0.16 -0.06 0.22 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.118 r_dihedral_angle_4_deg 18.26 r_dihedral_angle_3_deg 13.736 r_dihedral_angle_1_deg 5.849 r_scangle_it 4.347 r_scbond_it 2.883 r_mcangle_it 2.14 r_angle_refined_deg 1.456 r_mcbond_it 1.276 r_rigid_bond_restr 1.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.118 r_dihedral_angle_4_deg 18.26 r_dihedral_angle_3_deg 13.736 r_dihedral_angle_1_deg 5.849 r_scangle_it 4.347 r_scbond_it 2.883 r_mcangle_it 2.14 r_angle_refined_deg 1.456 r_mcbond_it 1.276 r_rigid_bond_restr 1.09 r_angle_other_deg 0.931 r_mcbond_other 0.368 r_chiral_restr 0.092 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1711 Nucleic Acid Atoms Solvent Atoms 301 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing