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CRYSTAL STRUCTURE OF THE FAB FRAGMENT OF A HUMAN MONOCLONAL IgM COLD AGGLUTININ
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DFB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 14%(W/W) PEG 8000, 0.1 M SODIUM HEPES PH 7.5
Crystal Properties Matthews coefficient Solvent content 3.38 64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 115.66 α = 90 b = 115.66 β = 90 c = 174.95 γ = 120
Symmetry Space Group P 31 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 291 IMAGE PLATE MARRESEARCH BENT MIRROR 1998-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE D03B-MX1 LNLS D03B-MX1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.83 13.1 96.8 0.069 0.069 2.8 31329 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.83 2.89 95.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 1DFB 2.83 13.1 2 31329 1578 96.8 0.216 0.1885 0.265 0.2355 RANDOM 43.6
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 p_staggered_tor 21.1 p_planar_tor 4.7 p_scangle_it 3.11 p_mcangle_it 3.06 p_scbond_it 1.89 p_mcbond_it 1.75 p_planar_d 0.05 p_angle_d 0.047 p_bond_d 0.014 p_angle_deg
RMS Deviations Key Refinement Restraint Deviation p_staggered_tor 21.1 p_planar_tor 4.7 p_scangle_it 3.11 p_mcangle_it 3.06 p_scbond_it 1.89 p_mcbond_it 1.75 p_planar_d 0.05 p_angle_d 0.047 p_bond_d 0.014 p_angle_deg p_hb_or_metal_coord p_plane_restr p_chiral_restr p_singtor_nbd p_multtor_nbd p_xhyhbond_nbd p_xyhbond_nbd p_orthonormal_tor p_transverse_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6492 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing