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Crystal structure of fc-fragment of human IgG2-Sigma antibody
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4HAF PDB entry 4HAF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 293 0.1 M SODIUM ACETATE, 18% PEG 3350, 0.2 M SODIUM FORMATE. CRYO CONDITIONS: 0.1 M SODIUM ACETATE, 20% PEG 3350, 0.2 M SODIUM FORMATE, 20% GLYCEROL, pH 4.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.71 54.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.54 α = 90 b = 69.97 β = 90 c = 112.25 γ = 90
Symmetry Space Group P 21 21 21
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 RIGAKU SATURN 944 VARIMAX HF 2011-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF
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 1.9 30 97.2 0.059 22 6.8 40887 40887 -3 27
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 1.9 1.97 72.9 0.351 3.2 3.3
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 4HAF 1.92 15 39744 39744 1051 94.6 0.20085 0.19963 0.2108 0.24652 0.2504 RANDOM 39.9
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] 2.65 -1.17 -1.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.215 r_scangle_it 26.772 r_scbond_it 26.539 r_dihedral_angle_4_deg 20.118 r_dihedral_angle_3_deg 13.292 r_dihedral_angle_1_deg 5.836 r_mcangle_it 5.101 r_mcbond_it 3.284 r_angle_refined_deg 1.288 r_chiral_restr 0.083
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.215 r_scangle_it 26.772 r_scbond_it 26.539 r_dihedral_angle_4_deg 20.118 r_dihedral_angle_3_deg 13.292 r_dihedral_angle_1_deg 5.836 r_mcangle_it 5.101 r_mcbond_it 3.284 r_angle_refined_deg 1.288 r_chiral_restr 0.083 r_bond_refined_d 0.01 r_gen_planes_refined
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3089 Nucleic Acid Atoms Solvent Atoms 409 Heterogen Atoms 155
Software Software Software Name Purpose StructureStudio data collection PHASER phasing REFMAC refinement XDS data reduction XDS data scaling