☰ Navigation Tabs
Crystal structure of fc-fragment of human IgG2 antibody (primitive crystal form)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3AVE PDB entry 3ave
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.1 M MES, 9% PEG 4000, 0.2 M AMMONIUM CHLORIDE, 5% MPD CRYO CONDITIONS: 0.1 M MES, 12% PEG 4000, 0.2 M AMMONIUM CHLORIDE, 20% PEG 400, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.7 54.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.5 α = 90 b = 75.17 β = 90 c = 146.01 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 2010-03-19 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 2.04 27.7 98.7 0.085 18.7 6.7 35162 35162 -3 -3 26.8
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 2.04 2.09 83.9 0.357 3.1 2.6
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 (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 3ave 2.04 15 34097 34097 970 96 0.20041 0.20041 0.19902 0.2036 0.24819 0.2526 RANDOM 35.1
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] -0.69 -0.24 0.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.759 r_scangle_it 30.36 r_scbond_it 27.505 r_dihedral_angle_4_deg 15.524 r_dihedral_angle_3_deg 14.008 r_dihedral_angle_1_deg 5.794 r_mcangle_it 5.104 r_mcbond_it 3.233 r_angle_refined_deg 1.189 r_chiral_restr 0.077
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.759 r_scangle_it 30.36 r_scbond_it 27.505 r_dihedral_angle_4_deg 15.524 r_dihedral_angle_3_deg 14.008 r_dihedral_angle_1_deg 5.794 r_mcangle_it 5.104 r_mcbond_it 3.233 r_angle_refined_deg 1.189 r_chiral_restr 0.077 r_bond_refined_d 0.009 r_gen_planes_refined
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3183 Nucleic Acid Atoms Solvent Atoms 329 Heterogen Atoms 99
Software Software Software Name Purpose CrystalClear data collection PHASER phasing REFMAC refinement XDS data reduction XDS data scaling