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Human Complement Component C3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1C3D PDB ENTRY 1C3D and structure of C3c
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 293 PEG 550 MME, sodium acetate, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.27 62.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.98 α = 90 b = 156.26 β = 90 c = 271.2 γ = 90
Symmetry Space Group I 2 2 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 4 2005-02-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.9393 ESRF ID14-4
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 3.3 39.12 99.7 0.081 10.7 4.5 37932 37818 -999 -3.7
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 3.3 3.5 99.2 0.433 2.3 4.5
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 1C3D and structure of C3c 3.3 40 37932 35817 1882 99.77 0.23302 0.23005 0.2267 0.28943 0.2857 RANDOM 94.4
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] 2.3 -0.03 -2.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.93 r_dihedral_angle_3_deg 20.345 r_dihedral_angle_4_deg 16.127 r_dihedral_angle_1_deg 6.596 r_scangle_it 1.06 r_scbond_it 0.578 r_mcangle_it 0.561 r_angle_refined_deg 0.528 r_nbtor_refined 0.316 r_mcbond_it 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.93 r_dihedral_angle_3_deg 20.345 r_dihedral_angle_4_deg 16.127 r_dihedral_angle_1_deg 6.596 r_scangle_it 1.06 r_scbond_it 0.578 r_mcangle_it 0.561 r_angle_refined_deg 0.528 r_nbtor_refined 0.316 r_mcbond_it 0.305 r_nbd_refined 0.215 r_xyhbond_nbd_refined 0.151 r_symmetry_vdw_refined 0.131 r_symmetry_hbond_refined 0.126 r_chiral_restr 0.035 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12771 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 89
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XSCALE data scaling PHASER phasing